eagle-i University of PennsylvaniaUniversity of Pennsylvania

Resource Providers at University of Pennsylvania

This is a summary list of all resource providers at University of Pennsylvania . The list includes links to more detailed information, which may also be found using the eagle-i search app.

ADCC and CNDR Tissue Research Banks

Type: Biorepository

Summary:

The University of Pennsylvania Alzheimer's Disease Core Center (ADCC) and the Center for Neurodegenerative Disease Research (CNDR) maintain tissue banks, funded by NIH (NIA, NINDS), for human brain samples obtained from patients with:
-- Alzheimer's disease (AD)
-- Parkinson's Disease (PD) and
-- other related neurodegenerative dementias and movement disorders

The tissue bank is a resource for qualified scientists. These tissue banks are "Core Facilities" that are part of NIH funded multi-component projects with the specific charge to support the research conducted by the project grant co-investigators. These project grant co-investigators therefore have priority for access to these samples in order to achieve the goals of their funded projects.

While the ADCC and CNDR make every effort to provide unused samples from these tissue banks to other investigators who are not part of these NIH grants, there are limitations on the types of cases acquired and banked in CNDR and the ADCC, as well as on which brain regions are available to investigators outside these NIH funded project grants. Accordingly, brain regions such as hippocampus, amygdale, brainstem, etc. – which are in high demand for use in the studies conducted by the project co-investigators in these NIH funded grants – are infrequently available to distribute to other outside investigators. Every effort is made by staff to accommodate the needs of outside investigators where possible.



Abramson Cancer Center

Type: Center

Summary:

The Abramson Cancer Center (ACC) is a dynamic, NCI-approved, comprehensive cancer center. Our dedicated members share the common goal of eliminating pain and suffering due to cancer. The ACC awards grants to cancer researchers, provides the necessary infrastructure for the conduct of cancer research (including the conduct of cancer clinical trials), and sponsors events and seminars of interest to cancer researchers.



Acute Care Biobanking Core (Penn/CHOP)

Type: Core Laboratory

Summary:

The goals of the Acute Care Biobanking Core are to encourage and facilitate microbiome- focused research in the pathogenesis, diagnosis and treatment of patients with critical illness. Many patients who are critically ill are subject to processes and complications with microbially-driven or infectious mechanisms. The Core will assist in research by providing de-identified samples with linked clinical metadata to support research in this area, collect specimens as needed in support of microbiome research, and offer support for development of such research in the critical care setting.



AddLab (Penn)

Type: Core Laboratory

Summary:

Located on the first floor of the Towne engineering building, the AddLab houses the mechanical engineering department's 3D printers and post-processing equipment. The lab is generally staffed by student additive manufacturing assistants who are available to consult with members of the university on their 3D printing needs. The lab is restricted to approved workers who print and process all of the parts. If your interested in having anything 3D printed, please see our 3D printing page.



Advanced Image Computing and Analytics Core (Penn)

Type: Core Laboratory

Summary:

AICAC was formed in July 2007 by the Section of Biomedical Image Analysis, Department of Radiology, University of Pennsylvania, in an effort to facilitate translational research that needs advanced image processing and analysis. As the size and needs of imaging studies have grown exponentially in the past decade, the need for highly automated and quantitative tools for image analysis has also grown. Although many sophisticated software tools have been developed by image computing laboratories, they don't regularly reach the clinical researchers, in part because of the absence of translational research bridges and in part because many such tools are not easy for the typical clinical researcher to use. The goal of AICAC has been to facilitate this flow of high-tech image analysis from computational labs to clinical researchers.



Advanced Optical and Force Microscopy Facility (Penn)

Type: Core Laboratory

Summary:

The PMI has assembled a unique combination of microscopes for single-molecule-imaging and single-molecule-force measurements. Secured through funding from the NSF, NIH, NIST, University Research Foundation and PSOM, these state-of-the-art instruments are being used to address important biological questions, using purified macromolecules and in live cells. The instruments are only the starting point, as PMI investigators develop novel imaging technologies that will greatly impact future research and funding. Available directly to the Penn community are:

1) Optical tweezers instruments for the measurement of nanometer-scale displacements and picoNewton-scale forces, both used for measuring biological forces and manipulating objects in vitro and in the cytoplasm of live cells.

2) A Bruker Catalyst Atomic-Force-Microscope (AFM) for measuring nanoNewton-scale forces, and for imaging microfabricated surfaces.

The laboratories of PMI members also develop and utilize advanced technologies for measuring macromolecule dynamics and localization that may be accessed via collaboration. Unique multiwavelength total internal reflection fluorescence (TIRF) microscopes provide millisecond-scale temporal and nanometer-scale spatial resolution of fluorescent molecules (e.g., GFP-proteins & quantum dots) in vitro and in vivo. In addition, polarization optics allow conformational changes to be observed in single molecules.



Age-related macular degeneration Gene Consortium

Type: Consortium



Ahima Laboratory

Type: Laboratory

Summary:

Research in my laboratory focuses on the interrelationship between energy stores and regulation of energy balance by the brain. Contrary to the prevailing view of the adipocyte as merely a specialized cell for the storage of excess energy in the form of triglycerides, there is increasing evidence that adipose tissue plays a more active role in energy homeostasis. The levels of leptin, adiponectin, resistin and other hormones secreted by adipose tissue are dependent on the status of energy balance, and serve as important signals linking energy stores to peripheral and central homeostatic mechanisms. Adipokines also have profound effects on the neuroendocrine axis, and glucose and lipid metabolism.



Albelda Laboratory

Type: Laboratory

Summary:

Immuno-gene Therapy for Thoracic Malignancies
Lung cancer and other thoracic malignancies are the leading cause of cancer deaths in the United States today. The Thoracic Oncology Research Laboratory is focusing on the design of new treatment strategies for lung cancer and mesothelioma based on the rapidly evolving disciplines of molecular biology, immunotherapy, and gene therapy.
Dr. Albelda’s research is translational in focus and includes animal models, work with human tumor samples, and the conduct of clinical trials. This work is primarily funded through a recently renewed Program Project from the National Cancer Institute and participation in a number of RO1 grants.
The tumor microenvironment is one area of active study. Studies are underway with the goals of 1) a better understanding of the biology of the tumor microenvironment with a focus on the immunuosuppressive activities of white blood cells and fibroblasts, 2) novel approaches to alter the tumor microenvironment to enhance immunotherapy including studying effects using COX-2 inhibitors, TGFbeta inhibitors, T-regulatory cell inhibitors., antibodies against B-cells, and chemotherapeutic drugs. A second area of interest in the lab is the use of adoptive T cell transfer to treat lung malignancies. Studies are underway to modify T cells in order to make them traffic more efficiently into tumors, to have better killing function, and to resist inactivation by the tumor microenvironment. A T cells targeting cancer-associated fibroblasts is being developed. In addition, Dr. Albelda is closely involved with a number of immunogene clinical trials at Penn using an adenovirus expressing the immune-activator interferon-alpha that is instilled into the pleural space of mesothelioma patients (in collaboration with Dr. Daniel Sterman) and T cells altered to attack the mesothelioma tumor target, mesothelin (in collaboration with Drs. Carl June and Andrew Haas).



Alzheimer's Disease Core Center (Penn)

Type: Core Laboratory

Summary:

The overarching mission of Penn's Alzheimer's Disease Core Center (ADCC) is to accelerate the pace of developing better diagnostics, preventions, and treatments for Alzheimer's disease and related disorders (ADRD).

It is our goal to understand the complexity of dementia of the AD type (DAT), related neurodegenerative dementias and other contributing factors by focusing on ADRD across the spectrum of disease from earliest onset through progressive stages of the disease. We are working to achieve this by emphasizing a comprehensive and integrated approach that engages and supports research on ADRD.



Alzheimer's Disease Genetics Consortium

Type: Consortium

Summary:

The Alzheimer's Disease Genetics Consortium is funded by a grant from the National Institute on Aging (PI, Gerard D. Schellenberg; UO1AG032984), an $18.3 million five-year research grant to conduct genome-wide association studies (GWAS) to identify genes associated with an increased risk of developing late-onset Alzheimer’s disease (LOAD).

The goal of the ADGC is to identify genetic variants associated with risk for AD. It has long been known that genetic factors play an important role in the development of AD. Familial aggregation studies show that first degree relatives of probands with AD are more likely to have or develop AD compared to relatives of controls. Twin studies show a higher concordance of AD among monozygotic compared to dizygotic twins, with heritability estimates of 60% to 80%.

There are four know AD genes: (1) Amyloid precursor protein gene (APP); (2) Presenilin 1 gene (PSEN1); (3) Presenilin 2 gene (PSEN2); (4) Apolipoprotein E gene (APOE). Mutations in APP, PSEN1, and PSEN2 cause autosomal dominant early-onset (mostly).

Linkage analysis has been used to attempt to identify additional late-onset AD genes. Genome scans of multiplex family collections have consistently identified linkage to chromosome 19 near APOE. In addition, regions of chromosomes 6, 9, 10, 12, 19 and 21, appear to be most promising for late-onset AD or related phenotypes. However, no gene responsible for these linkage signals, except APOE, has been convincingly identified. Likewise a large number of genes, nominated as candidates either based on pathogenic mechanisms or presence at linkage peaks, have been individually tested for association to AD. A summary of more than 1,000 late-onset AD association studies can be found at http://www.alzgene.org. Recent work on sortilin is promisingthough additional studies are needed. Despite these vast efforts, no gene other than APOE has emerged that is consistently associated with AD.

The difficulty in gene identification is possibly related to the fact that AD is a complex disease characterized by marked phenotypic heterogeneity. While AD neuropathology is often expressed as clinical AD, it can also be expressed as MCI, and is common in persons without obvious cognitive impairment. Further, other common neuropathologic indices, especially cerebrovascular disease and Lewy bodies can impair cognition, including episodic memory, the clinical hallmark of AD, and contribute to clinically diagnosed AD. Finally, several factors unrelated to disease neuropathology are now known to be associated with impaired episodic memory further contributing to the clinical AD phenotype. Like other complex diseases, it is likely that this heterogeneity has hampered the ability of investigators to identify genetic variants associated with the disease. Thus a combination of larger studies and novel approaches such as GWAS will be needed to accomplish this important task.



Analytical Neurochemistry Core

Type: Core Laboratory

Summary:

he Analytical Neurochemistry Core (ANC) will enable users to identify and quantify changes in brain biochemistry. Analyses are performed: (a) In vitro; (b) In pre-clinical animal models of intellectual and developmental disabilities (IDD); and (c) In vivo, in human patients. Users have access to a broad repertoire of analytical services, as well as expert advice with regard to experimental design and data interpretation.



Animal Facility (Wistar)

Type: Core Laboratory

Summary:

The Animal Facility is a shared resource that provides services in laboratory animal medicine and husbandry, as well as routine animal procurement, inventory, and care, for all Wistar scientists using animals in their research. The aim is to facilitate research through humane and efficient management of animal populations. The Wistar Animal Care and Use Program is fully accredited by the Association for Assessment and Accreditation of Laboratory Animal Care International (AAALAC).

The Institutional Animal Care and Use Committee (IACUC) is responsible for overseeing the Animal Care and Use Program with regard to the maintenance of acceptable standards for the care, use, and treatment of animals, including regulatory compliance, investigator training, animal user training, post approval monitoring and technical support services. Two attending veterinarians oversee all animal health concerns.



Aquatic Zebrafish Core Laboratory (CHOP)

Type: Core Laboratory

Summary:

The Aquatic Zebrafish Core provides services using the small vertebrate zebrafish as a model for human disease and to study gene function.

There are numerous reasons to model a disease in a fish, including the rapid, five-day development of zebrafish and the ability to image whole organs in vivo and perform time-lapse analysis. Also, zebrafish models give us the ability to complete drug screens by simply adding your drug to 100uL of fish water, perform behavioral analysis, and make it easy to create knock-outs and transgenic lines.

The Zebrafish Core serves all researchers at Children’s Hospital of Philadelphia and the University of Pennsylvania as well as outside organizations. We aim to make the zebrafish model accessible to everyone – from clinicians without their own labs to principal investigators with well-established projects.



Arterial Hemodynamics and Cardiac Imaging Quantification Core

Type: Core Laboratory

Summary:

We provide advanced, high-quality quantitative analysis of cardiac and arterial function for human research, particularly for mechanistic early-phase clinical trials in hypertension, heart failure, and chronic kidney disease.



Artificial Intelligence in Biomedical Imaging Lab

Type: Laboratory



Atchison Laboratory

Type: Laboratory

Summary:

The Atchison laboratory is interested in determining the molecular mechanisms responsible for transcriptional regulation and the control of B cell development. To pursue these studies, we explore the functions of a number of transcription factors that regulate immunoglobulin gene expression and that play important roles in immunoglobulin locus structure, antibody maturation, lineage differentiation, and oncogenesis. We pursue our studies by biochemical, molecular biological, genetic, and developmental approaches using a variety of experimental systems including cell lines representing defined stages of B cell development, multipotential tumor lines, transgenic animals, and chimeric mice. General areas of current interest include:

1. Developmental control of immunogloblulin locus structure. Transcription factor YY1 is crucial for B cell development, and we found this factor can regulate immunoglobulin kappa V gene rearrangement and repertoire. Current data suggest that YY1 binds to numerous locations within the kappa locus and associates there with Polycomb Group, Condensin, and Cohesin proteins. We speculate that YY1 nucleates the binding of these factors to the kappa locus in a tissue-specific and developmental stage-specific fashion.

2. Mechanism of antibody maturation. Within germinal center cells antibody genes undergo somatic maturation processes involving class switch recombination and somatic hypermutation. Both of these processes require the enzyme, Activation Induced Deaminase (AID). Levels of AID in the nucleus are very tightly regulated and misregulation of AID leads to B cell lymphoma. We found that transcription factor YY1 can physically interact with AID leading to increased nuclear stability and increased class switch recombination. We are currently studying the mechanism of this stabilization, and the role of YY1-AID interaction in B cell lymphoma.

3. Function of the transcription factor YY1 as a Polycomb-Group protein in transcriptional repression and embryonic development. We found that human YY1 can function as a Polycomb protein in vivo to repress transcription and to control embryonic development. YY1 also recruits other PcG proteins to DNA resulting in specific histone post-translational modifications. We are studying the mechanism of this recruitment and specific proteins that bridge YY1 to the Polycomb Group complex repressor proteins.

4. Function of YY1 in B cell lymphomagenesis. Physical interaction of YY1 with AID may augment its role in germinal center derived B cell lymphomagenesis. We are using mice that spontaneously develop B cell lymphoma to determine the impact of YY1 overexpression and YY1 loss on lymphomagenesis and agressiveness.

5. Role of transcription factor PU.1 in hematopoietic development and enhancer chromatin structure. We found that PU.1 binds to immunoglobulin enhancers and recruits other proteins to DNA. Using PU.1 conditional knock-out mice and a variety of PU.1 mutants that ablate specific functions, we are exploring the role of PU.1 in enhancer chromatin structure, protein recruitment to DNA, and B cell development.



Bartolomei Laboratory

Type: Laboratory

Summary:

The research in my laboratory focuses on the study of genomic imprinting and X inactivation in mice.



Bassing Laboratory

Type: Laboratory

Summary:

DNA double strand breaks (DSBs) are hazardous cellular lesions. Unfortunately, they also are very common. DSBs arise in every S phase through DNA replication errors and can be induced in any cell cycle phase by exogenous factors such as ionizing radiation or endogenous factors such as reactive oxygen species. When un-repaired or mis-repaired, DSBs can result in genomic instability that can lead to cell death or drive malignant transformation. Despite their danger, DSBs are a necessary part of biology. In this context, the induction and repair of DSBs within antigen receptor loci during V(D)J recombination and class switch recombination (CSR) is essential for development and function of an immune system capable of adapting and responding to a wide variety of pathogens. Cells have evolved efficient, specialized, and redundant mechanisms to sense, respond to, and repair DSBs. This generally conserved DNA damage response (DDR) integrates cell cycle progression and cellular survival to facilitate repair, or trigger apoptosis if damage is too severe. The physiological importance of V(D)J recombination and CSR control mechanisms has been demonstrated by the fact that defects in each can lead to immunodeficiency, autoimmunity, and lymphoma; while the immunological relevance of DDR control mechanisms has been illustrated by observations that deficiency of these can lead to immunodeficiency and lymphomas with antigen receptor locus translocations. One main research focus within the lab aims to elucidate molecular mechanisms through which the DDR maintains genomic stability and suppresses transformation in cells during V(D)J recombination, CSR, and DNA replication. Another research focus within the lab aims to exploit the knowledge and animal models gained through these studies to design, develop, and test novel treatments for cancer that are more effective and less toxic than current clinical therapies. A third research focus aims to elucidate the epigenetic mechanisms by which antigen receptor gene rearrangements are coordinated between homologous alleles and activated/silenced in a developmental stage-specific manner to maintain genomic stability and suppress cellular transformation during V(D)J recombination. Another research focus within the lab aims to test our hypothesis that the molecular mechanisms that control antigen receptor gene rearrangements and the cellular DDR co-evolved in lymphocytes to ensure development of an effective adaptive immune system without conferring substantial predisposition to autoimmunity or cancer upon the host organism.



Baur Lab

Type: Laboratory

Summary:

Aging is a critical risk factor for the major causes of morbidity and mortality in the western world, including cardiovascular disease, diabetes, cancer, and neurodegenerative disorders. Although the causes of aging are not known, it can be delayed experimentally in rodents by decreasing energy intake in the absence of malnutrition (caloric restriction, CR) and by a growing list of genetic and small molecule interventions. Our work is centered on elucidating the molecular mechanism(s) that mediate these improvements in health and delays in multiple age-related diseases, with a particular focus on nicotinamide adenine dinucleotide (NAD) metabolism and mTOR signaling.



Beckman Center for Cryo-Electron Microscopy

Type: Center

Summary:

The Beckman Center for Cryo-Electron Microscopy is the part of the Electron Microscopy Resource Laboratory that provides access to state-of the art cryo-electron microscopy (cryo-EM) and cryo-electron tomography (cryo-ET) for structural investigation of macromolecules and cells. The facility houses a Krios G3i microscope equipped with phase plate, K3 Summit Direct Detector camera and Bioquantum GIF energy filter. In addition, the facility has Vitrobot cryo plunger and all accessories needed to perform sample preparation for cryo-EM. The facility is available to Penn research groups and external academic research groups in the greater Philadelphia area.
The Beckman Center for Cryo-Electron Microscopy is reserved for samples that have already been optimized and are ready for extended cryo-EM data collection sessions on the Krios G3i microscope. If your samples are still in the optimization stage, we refer you to our Cryo-EM Screening and Training Facility.



Behavioral and Physiological Phenotyping Core (Monell)

Type: Core Laboratory

Summary:

Monell's Behavioral and Physiological Phenotyping Core provides training and research support in the behavioral and physiological phenotyping of rodents, including surgical and electrophysiological techniques utilized in rodent models. Core personnel offer expertise, instruction and equipment needed for methodologies common to research in the chemical senses, including preference tests, gustometers, olfactometers, LabMaster systems and metabolic cages.



Behrens Laboratory

Type: Laboratory

Summary:

The Behrens lab mainly focuses on dendritic cell biology and their function in normal and pathologic immune responses. In particular, we have developed an interest in Toll-like receptors (TLRs), a set of molecules on dendritic cells that recognize pathogens via common molecular motifs and initiate inflammatory responses. Within this theme of dendritic cell/TLR biology, the lab has two major arms of research:

1) TLR signal transduction ? TLRs have classically been thought to signal cells to generate inflammatory responses via two major signaling conduits, the MyD88 and TRIF pathways. However, there are many modifying and regulatory pathways that intersect with these tow major TLR signaling cascades. We are interested in probing the role of tyrosine phosphorylation events, mediated by Syk and the adapter protein Slp-76 in modulating TLR function in dendritic cells and macrophages.

2) Macrophage Activation Syndrome ? MAS is a rare, but fatal complication of a number of rheumatic, oncologic, infectious, and genetic disorders. In particular, 10% of patients with Systemic Juvenile Idiopathic Arthritis will develop fulminant, life-threatening MAS. The syndrome consists of a ?sepsis-like? clinical picture, and the pathologic hallmark of the disease is the hemophagocytic macrophage. These are macrophages, typically found in the bone marrow, that are phagocytosing other live hematopoetic cells such as red blood cells, platelets, or leukocytes. The pathoetiology of MAS in poorly understood, but is thought to be in part due to excessive CD8+ T-cell/antigen presenting cell (APC) interaction, resulting in overwhelming inflammation. While the T-cell determinants of this pathologic interaction have been reasonably well characterized, the APC side has not. Which APC plays a role in the disease, what APC inflammatory mediators, and what signal transduction pathways are critical to disease all remain unanswered and are potential areas of therapeutic development. Furthermore, the physiologic role of the hemophagocyte remains debated. We have developed a novel model of MAS in the mouse that does not depend on a genetic mutation but rather on repeated TLR stimulation, replicating the inflammatory environment seen in the rheumatic diseases associated with MAS. We have identified a complex network of cytokines, including IFNg and IL-10, and cell types that contribute to disease. We are currently working our the regulatory mechanisms behind these cytokines and cells to both provide insight into the fundamental immunology of MAS and develop novel therapeutics. We are also using transcriptome analysis to investigate the function of hemophagocytes to better understand their role in MAS.



Bennett Laboratory

Type: Laboratory

Summary:

Jean Bennett studies the molecular genetics of inherited retinal degenerations with the idea of using this knowledge to develop rational approaches for treatment of these diseases. Target diseases include retinitis pigmentosa and age-related macular degeneration. Studies in her laboratory range from identifying the molecular bases of retinal degenerations, generating animal models for these diseases, evaluating novel vectors for retinal gene transfer, characterizing immune responses to gene transfer, developing novel gene-based approaches for reversal of sensory loss, and rescuing vision in animal models through gene based treatments. Dr. Bennett was one of the first investigators to use viral vectors to deliver transgenes to specific cells in the retina and also led the first team to demonstrate proof-of-principle of ocular gene therapy. She has developed a number of strategies for gene therapy-mediated treatments for retinal disease. Besides the eye, projects in Dr. Bennett's laboratory target other diseases/organs suffering from mutations in cilia proteins, including the ear (cochlea) and the kidney (renal tubular epithelium). Dr. Bennett's work leads naturally to translational research. For example, a study conducted in her lab and with collaborators at UPenn, Cornell and University of Florida led to a remarkable reversal of blindness in a canine model of a blinding disease affecting infants. This treatment is currently being tested in human clinical trials at several different Centers. Dr. Bennett is Scientific Director for the Phase I/II human clinical trial evaluating the safety and efficacy of gene transfer in Leber congenital amaurosis (LCA) due to RPE65 mutations. This trial is being carried out at The Children's Hospital of PHiladelphia (CHOP). This was the first study to report the exciting efficacy results in all twelve subjects, including 5 children.



Berger Lab

Type: Laboratory

Summary:

Our lab focuses on mechanisms that regulate gene expression with a special emphasis on how the DNA-packaging structure of chromatin is manipulated during genomic processes. Our findings inform the study of cancer and other diseases, and ultimately drug discovery.



Biacore Facility Core

Type: Core Laboratory

Summary:

Biacore units use Surface Plasmon Resonance (SPR), enabling investigators to detect and monitor biomolecular binding events in real-time. This allows the user to gain a better understanding of biochemical mechanisms associated with protein-ligand interactions. The Penn Dental Medicine Biacore Facility Core features two Biacore units – the Biacore X and the Biacore 3000. The Biacore X is a manually operated unit with two flow cells, and the Biacore 3000 is a fully automated unit with four flow cells and multiple capabilities.
SPR is a valuable research tool to assay components by defining their interactions, providing quantitative information on:
-- Specificity – how specific is the binding between two molecules?
-- Concentration – how much of given molecule is present and active?
-- Kinetics – what is the rate of association/dissociation?
-- Affinity – how strong is the binding?

A special unit installed into the Biacore 3000 is an SPR–MALDI interface block. The block is designed to recover molecules that bind to a protein fixed to the sensor surface in the small volumes that are suitable for mass spectrometry. Bound component(s) are eluted into the micro-recovery module and analyzed by mass spectrometry, which identifies the bound component(s). This has been used to:
-- Characterize native or recombinant protein-protein and protein-ligand interactions.
-- Characterize antibodies by determining competition groups, affinity of binding, and ability to bind to various forms of a protein.
-- Characterize potential drug targets or diagnostic markers.



BioCiphers Lab

Type: Laboratory

Summary:

The lab combines genomic and genetic data to computationally model RNA processing, followed by experimental verification to decipher post-transcriptional regulation, phenotypic diversity and disease



Bioanalytical Core laboratory (CHOP)

Type: Core Laboratory

Summary:

The Bioanalytical Core (BCL-CORE) laboratory is a part of the newly established Center for Clinical Pharmacology. The Bioanalytical Core provides quantitative bioanalytical services (analysis of small molecule drugs, metabolites and biomarkers in blood, serum, plasma, urine, ultrafiltrate, micro-dialysate, dried blood spot (DBS) and tissue homogenates) that are used for drug discovery and development.

The Bioanalytical Core performs method validations, partial validations, cross-matrix validations, or combination of them required to meet project needs. Validation studies are performed in accordance with the US FDA Guidance for Industry, Bioanalytical Method Validation. The core has developed assays for investigational and marketed drugs used for pain, oncology, cardiology and infectious diseases. These assays are typically used to support pediatric drug discovery and development.

Validated Assays:

-- Dexmedetomidine
-- Cefazolin
-- Cefepime
-- Fluconazole
-- Amicar
-- Midazolam and 1 and 4-hydroxymidazolam metabolites
-- Morphine, morphine-3-glucuronide and morphine-6-glucuronide
-- Ketamine and Norketamine
-- Milrinone
-- Actinomycin D
-- Vincristine
-- Alisertib (MLN8237)
-- Efavirenz
-- Aprepitant (EMEND IV)
-- Tenofovir



Bioinformatics Core (Penn)

Type: Core Laboratory

Summary:

The Bioinformatics Core (BIC) of the Institute for Biomedical Informatics (IBI) provides professional bioinformatics services that include data analysis and consultation to the University of Pennsylvania Biomedical research community. The core builds efficient pipelines to handle various next-generation sequencing (NGS) data, generated within the Next Generation Sequencing Core (NGSC) of the Perelman School of Medicine or elsewhere. The Bioinformatics Core also provides bioinformatics support for grant applications by drafting approaches and by offering computation resources and analysis expertise for the proposed research.



Bioinformatics Facility (Wistar)

Type: Core Laboratory

Summary:

Overview

The Bioinformatics Shared Resource continuously develops new and efficient approaches to data analysis as a response to emerging research needs. Facility functions include: statistical analyses and computational modeling for all types of high-throughput data; advanced bioinformatics tools for integrative cancer biology; and data management. Routine data analyses include large scale information datasets (omics data) generated by high-throughput technologies, which address the following areas:
Gene expression (RNA-seq, smRNA-seq, microarrays)
Gene regulation (ChIP-seq, ATAC-seq, epigenetic profiling, promoter methylation arrays)
Genome and transcriptome sequencing (alternate splicing, RNA editing, gene fusion, SNP and INDEL mutation detection, CNV)
Biomarkers (discovering markers in mRNA ,miRNA and protein expression data)
Proteomic analyses (mass spectrometry-based spectra, LCMS, DIGE, RPPA, etc.)
Pathway and network analysis
Integration of multi-platform data
Other customized data analysis projects



Biological Chemistry Resource Center (Penn)

Type: Core Laboratory

Summary:

The Biological Chemistry Resource Center (BCRC) at the Department of Chemistry has been established to provide an open access user facility for state-of-art biophysical analytical instrumentation. The goal of the center is not only to provide access to instrumentation, but also supply the graduate student and post-doc user community with a firm understanding of the scientific principles behind the techniques and on-site expertise to ensure successful experimentation. Instrumentation access will be available to the entire University of Pennsylvania research community.



Biomechanics Core

Type: Core Laboratory

Summary:

The overall objective of this Biomechanics Core (BC) is to develop and utilize a wide range of biomechanical approaches to evaluate musculoskeletal tissue damage and repair, and to provide training and funding for new projects and collaborations utilizing these assays. Succinctly, our overarching aims are:

-- To provide guidance and training on the capabilities, advantages, and disadvantages of the various methodologies to assess musculoskeletal tissue biomechanical function through formal educational enrichment programs and one-on-one interactions.
-- To provide expertise and service for biomechanical assays of musculoskeletal tissues.
-- To develop new biomechanical testing techniques that will be applicable to musculoskeletal research.
-- To provide funding for development of new projects and collaborations and to develop preliminary and/or feasibility data for investigators.



Biomechanics Core Facility (Penn)

Type: Core Laboratory

Summary:

The Biomechanics Core works with ITMAT faculty from Penn, ITMAT partner institutions, and members of the ITMAT Program in Translational Biomechanics."

"Consultation and initial pilot experiments performed with the Biomechanics Core are free-of-charge to ITMAT faculty from Penn, ITMAT partner institutions, and members of the ITMAT Program in Translational Biomechanics.



Biomedical Library (Penn)

Type: Library



Biomedical Research Core Facilities

Type: Core Laboratory

Summary:

Welcome to the University of Pennsylvania Perelman School of Medicine Biomedical Research Core Facilities website. As the Associate Dean for Research Integration, I want to welcome you to our core facilities community and the wealth of services it provides to Penn's researchers, as well as those in neighboring scientific institutions.
The Perelman School of Medicine is committed to advancing the research and academic endeavors at Penn and neighboring scientific communities. Our 22 research cores offer a wide variety of services, ranging from molecular profiling to cell sorting to high resolution electron microscopy. Through these diverse resources, we provide access to state-of-the-art equipment and instrumentation, technical expertise and training and education all designed to support innovative, cutting-edge research.



Biorepository Core (CHOP)

Type: Core Laboratory

Summary:

The Biorepository Core collects and organizes biospecimens from investigators across the Research Institute. With a capacity for approximately 7 million samples, the facility is designed to house all of the biospecimens available at Children's Hospital, avoiding specimen duplication, preserving precious materials, and providing broad access to data and materials. Initial sample collection will focus on DNA samples, but with the addition of other freezers in the near future, the facility can also safely store fluids, RNA, tissue samples, and a number of other biospecimens.



Biostatistics Analysis Center (Penn)

Type: Core Laboratory

Summary:

As a CCEB Service Center, the BAC provides biostatistical programming and analysis support across a wide range of research programs and medical disciplines, of any size and complexity, both within the University and externally. Whether the BAC supports a federally funded multi-year, multi-center research study or provides short-term analytic support for a departmentally funded project, each project receives the right amount of specialized expertise needed to achieve research goals.



Biostatistics Core

Type: Core Laboratory

Summary:

The Biostatistics Core provides expert biostatistical guidance in the design, conduct, and analysis of research projects conducted by cancer center members, and offers training in the fundamentals of design and analysis to the Penn cancer research community. Specific areas of expertise include study design; use of research computing for database development, data management, and study monitoring; and analysis of basic, translational, clinical, and population-based research. Core personnel are prepared not only to apply existing methods of design and analysis, but also to modify or develop new methods to address novel design and analysis issues arising in cancer research projects. Collaborations emphasize establishing valid and testable hypotheses, identifying appropriate outcome measures, determining and applying optimal study designs, and examining power and sample size. Core members are also active in the Clinical Trials Scientific Review and Monitoring Committee, providing a thorough review of all proposed protocols, with the aim of ensuring that all clinical protocols are designed to efficiently and ethically achieve their clinical and translational objectives. Finally, the Core provides a range of data-centered services including data resource needs assessment; evaluation, selection, and deployment of commercial software tools; development of specialized software systems; support for data collection, management, and integration; guidance on computing hardware support; and education and training.



Biostatistics and Bioinformatics Core

Type: Core Laboratory

Summary:

The Biostatistics and Bioinformatics Core (BBC) provides comprehensive and expert analytic tools for IDDRC users who require support in biostatistics, experimental design and/or the analysis of the large datasets culled from DNA sequencing and cognate technologies.



Biostatistics and Bioinformatics Core- Gene Therapy program

Type: Core Laboratory

Summary:

The Biostatistics and Bioinformatics Core provides statistical, bioinformatics, and computational biology research support for GTP projects.

The work performed by the biostatistics core includes statistical analysis of data generated from animal studies, creation of JMP scripts for assay validation, power and sample size calculations, and review of clinical trial protocols. The work performed by the bioinformatics core includes analysis of genome editing data, RNA sequencing and single-cell RNA-seq data, plasmid and AAV sequencing data.



Biostatistics and Data Management Core (CHOP)

Type: Core Laboratory

Summary:

The Biostatistics and Data Management Core (BDMC) at The Children's Hospital of Philadelphia (CHOP) supports investigators from virtually all subspecialties of pediatric medicine and supports studies ranging from small, narrowly defined basic science projects to large, multi-site clinical trials.

BDMC can assist you in designing experiments, planning of clinical protocols, analyzing and interpreting data, and presenting and disseminating results. And the data management team members have expertise in designing case report forms, developing databases, creating data management plans, developing metrics to report on study progress, and delivering high-quality datasets for analysis. The BDMC offers the unique advantage of experience with Biologics License Application submissions.

The Biostatistics and Data Management Core currently supports more than 50 funded studies and collaborates with investigators on numerous grant applications each year. The BDMC is staffed by a Scientific Director, Deputy Director, and data management/information technology managers, as well as approximately 20 additional staff members representing the disciplines of biostatistics, data management, information technology and administration. The BDMC is located on the CHOP campus (3535 Market Street), and is operated and supported by Westat, a large health research organization with extensive biostatistics, data management and information technology capabilities.



Biostatistics and Data Science Core

Type: Core Laboratory

Summary:

The Biostatistics and Data Science (BDS) Core provides CFAR investigators with statistical consultation and collaboration for exploratory investigations and proposal development, and data management and informatics expertise for research planning.

The Core Director is Dr. Pamela Shaw, Associate Professor of Biostatistics. Dr. Susan Ellenberg, Professor of Biostatistics at the University of Pennsylvania, is the Core Co-Director.

Dr. Alisa Stephens, Assistant Professor of Biostatistics at the University of Pennsylvania, is a Core Investigator. Mr. Chris Helker, Director of Clinical Data Management at Penn’s Clinical Research Computing Unit, is the Core representative for data management needs.

Drs. Shaw and Ellenberg, together with Core Investigator Dr. Alisa Stephens, Assistant Professor of Biostatistics, and a supporting data analyst, provide consultation and collaboration on study design and analysis issues requested via the Core. Drs. Shaw, Ellenberg, and Stephens all have substantial experience and expertise in designing, conducting and analyzing data from clinical trials as well as laboratory studies and observational studies. Dr. Shaw’s ongoing statistical research program addresses the analysis of data that include error-prone or misclassified covariates, such as exposures and outcomes derived from the EHR, and/or outcomes in HIV-related epidemiological and clinical investigations.

Every attempt will be made to link investigators with statistical collaborators who have particular expertise in the methods relevant to the types of data to be generated in their study; other faculty and research staff may become involved in CFAR projects to provide specialized expertise when needed



Birnbaum Laboratory

Type: Laboratory

Summary:

The ability to respond to nutritional stress is one of the most primitive adaptations that organism must accomplish. The pathways that alert the organism to an absence of food and initiate an appropriate response are remarkably well-conserved and involve such critical signaling molecules as the protein kinases Akt and AMP-activated protein kinase (AMPK) as well as nutrient sensors such as the carbohydrate response element binding protein (ChREBP).

The Birnbaum lab studies this complex biological response in two contexts: the initiation of cell growth after a transition from nutritional deprivation to abundance and the insulin-dependent redistribution of simple substrates into long-term energy stores. The latter process involves a number of distinct but interacting components such as glucose-stimulated insulin secretion, and the insulin-dependent acceleration of hepatic lipid synthesis and glucose uptake into adipocytes and muscle. Two aspects of the regulation of glucose transport by insulin, both of which are studied in the Birnbaum lab, are the way in which insulin regulates the movement of hormone-sensitive Glut4 glucose transporter from the inside of the cell to the plasma membrane, and the signaling pathway by which insulin accomplishes this. There are also a number of projects underway aimed at understanding how the evolutionarily conserved sensor of nutritional stress, AMP-activated protein kinase, regulates carbohydrate and fat metabolism. These fundamental biological problems are addressed using experiments performed in tissue culture cells, mice and the genetically tractable organism Drosophila melanogaster.



Blair Laboratory

Type: Laboratory

Summary:

Research in our laboratory is heavily involved in the use of mass spectrometry for proteomics, lipidomics, and DNA analysis. We are particularly interested in determining the factors that control lipid hydroperoxide-mediated damage to DNA, RNA, and proteins. Methodology is being developed to characterize covalent modifications to these macromolecules using novel mass spectrometry techniques, determining how these can be evaluated as potential “biomarkers” of various physiological processes and disease states, and assessing how such processes can be prevented using novel pharmacological agents.



Brain Behavior Laboratory

Type: Laboratory

Summary:

The Brain Behavior Laboratory is devoted to the study of the brain and behavior in healthy people and individuals with brain disorders through the use of behavioral measures combined with structural and functional neuroimaging. The current focus of the laboratory is to integrate multi-modal behavioral and neuroimaging methods with genomics in order to understand typical neurodevelopment and identify abnormalities associated with brain disorders. We are interested in cognition, emotion and olfaction and how deficits relate to symptoms and functioning in people with psychosis.



Brain Injury Behavior Center

Type: Center

Summary:

The Brain Injury and Behavior Center specializes in neurobehavioral medicine, providing comprehensive evaluation and treatment of mood, cognitive and behavioral disturbances in individuals with brain injuries and illnesses, including concussion, severe TBI, strokes, tumors, seizure disorders, and any diagnosed focal or generalized brain disease.

The BIBC interacts with other specialty departments and programs at Penn, including Physical Medicine and Rehabilitation, Neurology, Radiology, etc to provide coordination of specialized services and comprehensive medical, as well as behavioral and psychological, care for our patients.



Brodkin Laboratory

Type: Laboratory

Summary:

Our laboratory is interested in the neurobiological and genetic mechanisms of social behavior development, including the development of social affiliative and aggressive behaviors. Social interactions can have both rewarding and aversive qualities for an individual. The balance between reward and aversion depend upon the context of the interaction, as well as the genetically-shaped temperament and developmental history of the individual. Certain highly heritable neuropsychiatric disorders, including autism and schizophrenia spectrum disorders, are characterized by disabling social withdrawal and disturbances in social cognition. Despite its importance, the fundamental biology of these social behaviors is not well understood, and currently available treatments for these social behavior symptoms are inadequate.

Our studies of the biology of social behaviors use the mouse as a model organism, because of the experimental control that a model organism provides, and because of the many resources available for mouse genetics. For virtually every mouse gene, there is a homologous human gene, and vice versa. Moreover, the genetic and neurobiological pathways underlying basic social behaviors, such as affiliation and aggression, appear to have been conserved, to a substantial extent, across mammalian evolution. Thus, animal studies can help to elucidate neurobiological pathways and mechanisms that are involved in autism, schizophrenia, and other human neuropsychiatric disorders.

Mice and many other mammals rely heavily on olfactory information from conspecifics (pheromones and other odorants) to guide social interactions, whereas humans rely more heavily on visual and auditory information (facial expression and language). However in virtually all mammals, the emotional/motivational significance of this sensory information about the social world is processed, downstream, by various amygdala nuclei, the bed nucleus of stria terminalis (BNST), various hypothalamic nuclei, the nucleus accumbens, and the lateral septum. We are studying the role of these neural circuits in social affiliative and aggressive behaviors, using mouse models.

Our current projects include the following: 1) Studies of the neurobiology of individual differences in social affiliative behaviors, using behavioral, pharmacologic, and genetic methods in inbred mouse strains; 2) studies of the neurobiology of social behavior phenotypes in mice with spontaneous or induced mutations of autism or schizophrenia susceptibility genes; 3) studies of gene-environment (prenatal inflammation) interactions in shaping social behavior development; 4) studies of the neurobiology of candidate genes in a quantitative trait locus that affects aggressive behaviors in mice.



Brodsky Laboratory

Type: Laboratory

Summary:

Our research focuses on the interplay of bacterial virulence mechanisms and host innate immune recognition strategies. We are interested in defining how bacterial pathogens are sensed by host cells, how this sensing contributes to antimicrobial immune defense, and how bacterial pathogens evade these innate immune recognition pathways.

The immune system utilizes two types of recognition strategies to detect microbes – membrane-bound pattern recognition receptors (PRRs), such as Toll-like Receptors, detect conserved microbial structures present in all microbes of a given class. Conversely, cytosolic receptors sense microbial virulence activities that result from the disruption of celluar processes or the inappropriate contamination of the host cell cytosol by microbial products. Notably, innate immune cells infected with a variety of unrelated bacterial pathogens, but not avirulent or non-pathogenic bacteria, undergo a pro-inflammatory form of cell death termed pyroptosis, which depends on the cellular protease caspase-1. Caspase-1 plays an important role in the cleavage and secretion of the pro-inflammatory cytokines IL-1ß and IL-18, and is therefore important in immune defense against various microbial infections. Members of the Nucleotide binding domain-Lecuine Rich Repeat (NLR) family of cytosolic signaling proteins recruit caspase-1 into multi-protein activating platforms termed ‘inflammasomes’. Inflammasome complexes are activated in response to a variety of bacterial, viral, and fungal infections and inflammasome activation plays an important role in host defense. However, successful pathogens have also evolved mechanisms to evade or subvert inflammasome activation, thereby avoiding caspase-1-dependent immune responses.

We use the Gram-negative bacterial pathogens Yersinia pseudotuberculosis and Salmonella typhimurium in combination with genetic, biochemical, and imunological approaches on both the bacterial and host side to understand the bacterial signals that trigger inflammasome activation, how inflammasome activation is coupled to innate and adaptive immune responses, and how bacterial pathogens evade inflammasome-dependent immune responses.

Recent studies in our laboratory have revealed unexpected links between caspase-1 activation and activation of other cell death pathways (Philip et al., PNAS 2014), and have identified a novel mechanism for sensing of TCA cycle metabolites by the NLRP3 inflammasome pathway (Wynosky-Dolfi et al., J Exp Med, 2014). Further studies have also demonstrated that bacterial pathogens tune the delivery of specific virulence factors into the host cell, so as to avoid triggering inflammasome response pathways (Zwack et al., MBio 2015)

Ongoing Projects in the Brodsky Lab involve (1) Dissecting the role of extrinsic cell death pathway components in inflammation. (2) Defining the contribution of inflammasome activation to anti-Salmonella immunity. (3) Determining the role of cell death in anti-bacterial immunity in vivo (4) Understanding the role of bacterial secretion system pore proteins in inflammasome activation



Brown Laboratory

Type: Laboratory



Bucan Laboratory

Type: Laboratory

Summary:

Research in my laboratory involves identification of the genetic basis of behavioral and psychiatric disorders. To complement ongoing efforts in human psychiatric genetics, my laboratory embarked over the last several years on two main projects: a screen for novel behavioral mutations in the mouse and the functional annotation of the mammalian genome using bioinformatics approaches. We are now less involved in studies of behavioral traits in the mouse and main projects in the laboratory involve human genetic studies of neurodevelopmental and psychiatric disorders.



Burkhardt Laboratory

Type: Laboratory

Summary:

The focus of my lab is on the role of the cytoskeleton in T cell and dendritic cell function. The cytoskeleton is intimately involved in determining the efficiency and the fidelity of the immune response. For example, when a cytotoxic T cell recognizes a tumor cell for lysis, specific receptor interactions trigger capping of the cortical actin cytoskeleton, creating a specialized membrane domain that is important for T cell signaling events leading to lysis of the tumor cell. Similar processes are important for directing and modulating T cell help. In dendritic cells, actin regulatory proteins control the uptake and presentation of antigens, migration of antigen-bearing cells from sites of infection to lymphoid organs, and defining the outcome of T cell stimulation. Our long-term goals in the lab are to understand how receptor-ligand interactions at the cell surface trigger remodeling of the cytoskeleton, and how the cytoskeleton in turn affects the immune response. Proteins of current interest in the lab include WASP, an actin regulatory protein involved in immunodeficiency disease, HS1, a related protein implicated in autoimmune disease, and Crk family adapter proteins, proteins that control T cell adhesion and migration.



Bushman Laboratory

Type: Laboratory

Summary:

Research in the Bushman laboratory focuses on host-microbe interactions in health and disease, with particular focus on studies of 1) the human microbiome, 2) HIV pathogenesis, and 3) DNA integration in human gene therapy.

In recent years, our work has been driven increasingly by the remarkable new deep sequencing methods, which can produce more than 100 billion bases of DNA sequence information in a single instrument run.

For microbiome studies, this allows comprehensive analyze of microbial populations without reliance on culture-based methods, which can detect only a small fraction of all organisms present.

For studies of HIV replication, this allows analysis of complex viral populations or distributions of retroviral DNA integration sites in the human genome.

For gene therapy, this allows tracking of integrated vectors in gene-corrected subjects and molecular characterization of adverse events. Sample acquisition can sometimes be difficult in such projects, but bioinformatic analysis afterwards is almost always harder. We have been carrying out this type of study since 2002, when we showed that HIV DNA integration in human cells was favored in active transcription units, and over the years have built up partially automated software pipelines that allow efficient analysis deep sequencing data.

Lab members and collaborators cover a range of specialties, including clinical researchers, molecular biologists, computational biologists, and statisticians.



CARDIoGRAM+C4D Consortium

Type: Consortium

Summary:

CARDIoGRAMplusC4D (Coronary ARtery DIsease Genome wide Replication and Meta-analysis (CARDIoGRAM) plus The Coronary Artery Disease (C4D) Genetics) consortium represents a collaborative effort to combine data from multiple large scale genetic studies to identify risk loci for coronary artery disease and myocardial infarction.



CHOP Microbiome Center (Sequencing and Analytical Resource) (CHOP)

Type: Core Laboratory

Summary:

The CHOP Microbiome Center is the sequencing resource of the PennCHOP Microbiome Program. The Center is comprised of a Sequencing Core and an Analytical Core. Together we provide end-to-end solutions for microbiome research.

The Sequencing Core provides expertise in next-generation sequencing of microbiome samples. Services include sample aliquoting, DNA extraction, quantitative PCR, library preparation, and sequencing. All protocols and workflows are optimized for individual sample types.
Infrastructure for deep sequencing includes an Illumina HiSeq 2500 instrument, MiSeq instruments, and Oxford Nanopore technology. The sequencing facility is housed in the Colket Translational Research Building at CHOP. The wet lab is located in the adjoining Abramson Research Center and it includes dedicated pre- and post-PCR spaces. The labs are well equipped with the latest instruments including two automated liquid handling robots for high-throughput processing. The Sequencing Core is staffed by a laboratory manager and three research technicians.

The Analytical Core provides expertise in large-scale bioinformatics analysis of microbiome datasets. Core services start with a thorough quality check and review of sequencing results. This includes removal of host genomic sequences and other DNA added during the sequencing protocol. Automated pipelines assess the bacterial, fungal, and viral taxa found in each sample. Alignments to genes of known function are summarized, and the data are queried against a curated collection of full genomes for microbes of interest.
The primary mission of the Analytical Core is to follow up basic bioinformatics analysis with targeted bioinformatics and statistical approaches that are unique to each study. Rather than applying a one-size-fits-all approach, our goal is to collaborate with other researchers and draw conclusions from the sequence data about which we have high confidence and which reflect the original goals of the experiment.
The Analytical Core is located at the CHOP Roberts Center for Pediatric Research. High capacity network lines connect the Analytical Core to the Sequencing Core, and to the CHOP supercomputing facility in Allentown, PA. The Core is staffed by three full time programmer/analysts and is supported by a network of consulting statisticians.



CHPS Behavioral Neurosciences Core (CHOP)

Type: Core Laboratory

Summary:

The Behavioral Neurosciences Core provides consultation and assistance to investigators regarding psychological, neuropsychological, and psychiatric components of research studies involving pediatric subjects.

Together, the services provided by the Behavioral Neurosciences Core offer research infrastructure support across the entire process of research, from pre-design consultation to development and analysis of behavioral data, and across multiple domains of functioning and outcomes.



CHPS Cardiovascular Phenotyping Unit (Penn/CHOP)

Type: Core Laboratory

Summary:

The Cardiovascular Phenotyping Unit provides cardiac testing services with shared facilities for both children and adults. The Unit provides the technical services and expertise to conduct the highest quality research, provides research tests in a cost-effective manner, and provides unparalleled training opportunities in clinical research for investigators, fellows, students and technicians. Most services are provided across the life cycle. For studies involving both adult and pediatric populations, the pediatric and adult CPUs can collaborate closely and standardize procedures according to the investigators’ needs. Please contact the Directors for special arrangements or input regarding cardiovascular phenotyping.



CHPS Exercise Medicine Unit (Penn)

Type: Core Laboratory

Summary:

The Exercise Medicine Unit offers exercise training and testing services. The exercise training room contains:

• treadmills,
• arc trainer,
• recumbent bike,
• functional trainer,
• adjustable bench,
• and a power block area.

It is staffed by a full-time, certified exercise trainer who can help design exercise training protocols and administer them to clinical research study participants. Exercise interventions can be designed to occur onsite at the Mutch building or for community/home settings. Consultations to assist with design of exercise intervention protocols are available.

Exercise testing services include a recumbent exercise bike and a motorized treadmill, with adjacent ECG monitoring, metabolic cart and VO2 max measurements, and anaerobic power testing. Additional testing services include grip strength, six minute walk tests, and gait speed. Objective Physical Function tests (e.g. SPPB, TUG, and PPT) can also be done by the staff of this unit. Consultations to assist with designing exercise testing protocols are available.



CHPS Informatics Services Core (Penn/CHOP)

Type: Core Laboratory

Summary:

The staff of this core gives guidance and/or coordinates data management, capture and analysis on behalf of the investigator within the Institute and assists more broadly with computing issues related to the approved protocol. This core provides services to investigators for their CHPS-approved studies that are utilizing other CHPS core services.



CHPS Nutrition Core, Dietary Assessment (Penn/CHOP)

Type: Core Laboratory

Summary:

Nutrition plays a vital role in health at all ages. The Center of Human Phenomic Science (CHPS) offers a Bionutrition Research Unit (BRU) to facilitate and implement clinical and translational research services. Research dietitians assist investigators with research design, implementation, data collection and analysis in study protocols.

The Dietary Assessment Unit of the Nutrition Core provides a broad range of nutrition-related research services to investigators at the Children's Hospital of Philadelphia, the Hospital of the University of Pennsylvania (HUP) and Penn Presbyterian Medical Center (PMC).



CHPS Nutrition Core, Nutrition Assessment (CHOP)

Type: Core Laboratory

Summary:

The Nutrition Assessment Unit of the Nutrition Core is a state-of-the-art facility for the assessment of growth and body dimensions, body composition (the amount of muscle, fat and bone in the body), energy expenditure, bone density, and muscle strength. The Unit has two locations and four experienced technicians for performing research assessments.



CHPS Ophthalmology Core (CHOP)

Type: Core Laboratory

Summary:

The Center for Human Phenomic Science (CHPS) offers ophthalmological testing services for children. The Ophthalmology Core at CHOP’s CHPS was established to provide clinical and translational research services in ophthalmology for the assessment of visual function and structure.

Services provided include:
• Eye exams (includes visual acuity, recognition acuity, grating acuity, motility, slit lamp exam / anterior segment evaluation,
external segment evaluation, fundus exam, refraction, best corrected)
o Contrast sensitivity
o Color vision testing
• Optical coherence tomography (OCT) tests of the:
o Anterior segment
o Posterior segment – optic nerve
o Posterior segment – retina
• Visual field measures:
o Using Humphrey
o Using Goldman
• Full field sensitivity testing
• Electroretinography
• Visual evoked potential
• Fundus photography
• Ocular ultrasound
• Professional interpretation of all tests is also available



CHPS Research Nurse Core (Penn/CHOP)

Type: Core Laboratory

Summary:

The Center for Human Phenomic Scienc (CHPS) has two main locations as well as satellite locations. The protocols cover a wide variety of research areas including: HIV, sleep disorders, cholesterol, obesity, diabetes, various cancers, arthritis, hypertension, renal disease, short bowel syndrome, and neonatal and surgical studies as well as new treatments for various diseases. The CHPSs service over 1200 inpatients and over 6000 outpatients a year. Research subjects range from premature infants to the elderly, with the majority of adults being seen at HUP.

HUP Unit - Dulles Building:
• 8 bed inpatient
• 8 chair and 2 bed outpatient unit
• metabolic kitchen
• Scatterbed nursing services throughout hospital units including the ICUs, ED and operating rooms

UPPMC Unit – 1st Fl Mutch Building:
• 18 outpatient treatment beds
• metabolic kitchen

CHOP Units:
• 4 bed inpatient unit – 5 West Main
• outpatient unit with 2 treatment rooms, 4 treatment chairs and a consultation room - Main 7
• Scatterbed nursing services in Newborn Nursery - Ravdin Building

The nurse manager should be contacted prior to submitting a new protocol submission to the CHPS and discussions should continue throughout the start-up process.



CHPS Sleep Core (Penn/CHOP)

Type: Core Laboratory

Summary:

The CTRC Sleep Core provides services in support of clinical sleep research. It is based at two sites: the CHOP Sleep Laboratory, convenient to the CTRC Outpatient Facility on the 7th Floor of Main Hospital and the University of Pennsylvania’s Sleep Laboratory, located on the 11th Floor of the Gates Building which is part of the medical complex of the Hospital of the University of Pennsylvania. The Sleep Core contains a total of six designated research beds, dedicated staff, and state-of-the-art equipment that provides support for a variety of sleep-related research initiatives. Studies performed in the Sleep Core include overnight polysomnography, multiple sleep latency testing, neurobehavioral testing and actigraphy. The Sleep Core´s goals include providing highest-quality sleep studies, extending sleep research to disciplines not traditionally involved in this area, further developing extant multidisciplinary programs, and offering training opportunities for medical students, residents, fellows, and junior faculty in clinical sleep research. The Sleep Core is associated with CHOP’s and UPHS’ American Academy of Sleep Medicine-accredited Sleep Center Laboratories.

Services for pediatric and adult subjects:

Study Design
Overnight Polysomnography
-Polysomnography Interpretation
Multiple Sleep Latency Testing
Actigraphy
Neurobehavioral testing
Sleep Core Library



CHPS Study Design and Biostatistics Core (Penn/CHOP)

Type: Core Laboratory

Summary:

The Study Design and Biostatistics (SDAB) Core works closely with existing resources to provide targeted study design and biostatistics support to ITMAT/CTSA investigators. The Core serves as a direct provider of services, including protocol review, study design, proposal development, and performance of simple to potentially substantial complex analyses. SDAB integrates the support available with the HUP and CHOP Center for Human Phenomic Science (CHPSs), the expertise and resources of faculty in the Center for Clinical Epidemiology and Biostatistics / Department of Biostatistics and Epidemiology (CCEB/DBE), the Biostatistics Analysis Center (BAC), and the Biostatistics and Data Management Core (BDMC) at CHOP.



CRISPR/Cas9 Mouse Targeting Core

Type: Core Laboratory

Summary:

The CRISPR/Cas9 Mouse Targeting Core Facility serves to streamline procedures that facilitate investigators' use of the CRISPR/Cas9 genome editing technology for the rapid and economic generation of novel mouse genetic tool. Services offered: KO mice, KI mice - small sequences, CKO mice, KI mice - large sequences.



CTRC Research Nurse Core (Penn/CHOP)

Type: Core Laboratory

Summary:

The Clinical and Translational Research Center (CTRC) has two main locations as well as satellite locations. The protocols cover a wide variety of research areas including: HIV, sleep disorders, cholesterol, obesity, diabetes, various cancers, arthritis, hypertension, renal disease, short bowel syndrome, and neonatal and surgical studies as well as new treatments for various diseases. The CTRCs service over 1200 inpatients and over 6000 outpatients a year. Research subjects range from premature infants to the elderly, with the majority of adults being seen at HUP.

HUP Unit - Dulles Building:
• 8 bed inpatient
• 8 chair and 2 bed outpatient unit
• metabolic kitchen
• Scatterbed nursing services throughout hospital units including the ICUs, ED and operating rooms

UPPMC Unit – 1st Fl Mutch Building:
• 18 outpatient treatment beds
• metabolic kitchen

CHOP Units:
• 4 bed inpatient unit – 5 West Main
• outpatient unit with 2 treatment rooms, 4 treatment chairs and a consultation room - Main 7
• Scatterbed nursing services in Newborn Nursery - Ravdin Building

The nurse manager should be contacted prior to submitting a new protocol submission to the CTRC and discussions should continue throughout the start-up process.



CTRC Sleep Core (PENN/CHOP)

Type: Core Laboratory

Summary:

The CTRC Sleep Core provides services in support of clinical sleep research. It is based at two sites: the CHOP Sleep Laboratory, convenient to the CTRC Outpatient Facility on the 7th Floor of Main Hospital and the University of Pennsylvania’s Sleep Laboratory, located on the 11th Floor of the Gates Building which is part of the medical complex of the Hospital of the University of Pennsylvania. The Sleep Core contains a total of six designated research beds, dedicated staff, and state-of-the-art equipment that provides support for a variety of sleep-related research initiatives. Studies performed in the Sleep Core include overnight polysomnography, multiple sleep latency testing, neurobehavioral testing and actigraphy. The Sleep Core´s goals include providing highest-quality sleep studies, extending sleep research to disciplines not traditionally involved in this area, further developing extant multidisciplinary programs, and offering training opportunities for medical students, residents, fellows, and junior faculty in clinical sleep research. The Sleep Core is associated with CHOP’s and UPHS’ American Academy of Sleep Medicine-accredited Sleep Center Laboratories.

Services for pediatric and adult subjects:

Study Design
Overnight Polysomnography
-Polysomnography Interpretation
Multiple Sleep Latency Testing
Actigraphy
Neurobehavioral testing
Sleep Core Library



CTRC Translational Core Laboratories (Penn/CHOP)

Type: Core Laboratory

Summary:

The Translational Core Laboratory consists of the Specimen Collection, Processing and Point of Care, Biochemistry, Cell Culture/DNA Isolation, and Molecular Biology core laboratories. Laboratory testing is integrated across Penn and CHOP, and TCL services are provided at multiple physical locations at both Penn and CHOP.

Penn location: first floor Smilow Center for Translational Research
CHOP location: 804 Abramson Research Center (ARC)



Cancer Histology Core

Type: Core Laboratory

Summary:

The Cancer Histology Core is a non-profit, research-oriented resource core supported by the Abramson Cancer Center. It offers all histology-related services to all members of the Abramson Cancer Center with high quality, low cost, fast turnout, and easy interaction.

Service will be open to all life sciences investigators at Penn, but priority will be given to full members of the Abramson Cancer Center.



Cancro Laboatory

Type: Laboratory

Summary:

Our laboratory is currently pursuing studies focused on mechanisms of B cell homeostasis and how these impact autoimmunity and aging. These have led to the characterization of a novel receptor for BLyS, a TNF family member that controls B cell numbers and determines the stringency of B cell selection.



Cartographic Modeling Lab (Penn)

Type: Core Laboratory

Summary:

The CML specializes in applying geographic information systems (GIS) software and hardware to digitally link data and geography to generate spatial databases, maps, spatial statistical analyses, and mapping applications, providing a useful way to reveal spatial and temporal relationships among data.

By using GIS to visualize geographic relationships that affect health outcomes, public health risks, disease transmission, access to health care, and other public health concerns, the CML conducts spatial research, policy analysis, and develops mapping applications of value to investigators at Penn and beyond.



Cell Center Services Facility (Penn)

Type: Core Laboratory

Summary:

Cell Center Services Facility is the service component of the Cell Center, provides training and services in various cell culture and associated procedures including Mycoplasma and Endotoxin testing. The cell culture service includes cell culture at various scales, large scale growth of hybridoma and other cell lines followed by antibody purification by protein G column and the generation of lymphoblastoid cell lines by EBV induced transformation of lymphocytes. In addition, the facility prepares specialized cell culture media, drosophila media, and various molecular biological reagents.

Recently cell transfection and selection service has been introduced at the facility.



Cell Center Stockroom (Penn)

Type: Core Laboratory

Summary:

The Cell Center Stockroom is a division of the Genetics Core Facilities (GCF). The GCF is a University service center, established in 1973 to provide consultation, training, and services in the areas of cell culture and hybridomas. Also, the GCF to provides a full range of cell culture media and molecular biology reagents needed by investigators to perform cell culture techniques in their own laboratories. The DNA Sequencing Facility, Genetic Diagnostic Laboratory and Transgenic/Chimeric Animal Facility are the remaining three divisions of the GCF.

The Stockroom serves University of Pennsylvania investigators and affiliate institutions (Cancer Center, Chidren's Hospital of Philadelphia, Hospital of the Unviersity of Pennsylvania, The Wistar Institute, Monell Chemical Senses Center, and Presbyterian Hospital) by coordinating relations with various suppliers of molecular biological research materials. This involves not only bulk purchasing of these products, but the negotiation of discounts and convenient delivery arrangements. There are over 1,100 products on-site for immediate delivery in the Stockroom. Special ordering of non-regularly stocked products is available from 28 bioreagent vendors with discounted pricing and overnight delivery.

List of Stockroom Vendors:

Amaxa Biosystems
Ambion, Inc.
Applied Biosystems
Atlanta Biologicals
Bio-Rad Laboratories
Biowhittaker
Cell Center Services
Cell Signaling Technologies
Clontech Laboratories
Collaborative
Denville Scientific
Difco Laboratories
EMD Millipore
Fermentas
Fisher (Thermo) Scientific
GE/Amersham Bioscience
Gemini Bio-Products
Hyclone Laboratories
Integra Biosciences
Integrated DNA Technologies Invitrogen
ISC Bioexpress
KAPA Biosystems
Kodak
Life Technologies
Lonza
MediaTech
New England Biolabs
Open Biosystems
Perkin Elmer Life Sciences
Promega
Qiagen
Rainin Instruments
Roche
Sigma-Aldrich
Stratagene/Agilent Technologies
USA Scientific
USB Corporation/Affymetrix
VWR International
WorldWide Medical Products



Cell Culture Core

Type: Core Laboratory

Summary:

The Cell Culture Core maintains a centralized repository of cells and reagents pertinent to digestive, liver and pancreatic disease research. It also provides training (especially for students and postdoc fellows) for labs in new cell culture (2D and 3D) techniques.

Cells lines are established from freshly obtained surgical specimens, all aspects of which are approved by the University of Pennsylvania Institutional Review Board. Adenoviral, retroviral and lentiviral constructs are created, propagated and maintained under institutional guidelines for biohazardous materials.

Provided is a listing of items currently carried by the Cell Culture Core:
1) Lists of available GI cancers and engineered human and mouse esophageal epithelial cells.
2) Protocol for human esophageal epithelial cell culture.
3) Protocol for mouse esophageal epithelial cell culture.
4) Protocol for soybean trypsin inhibitor preparation used for mouse and human esophageal cell culture.
5) Protocol for organotypic 3D culture.
6) Basic Sterile Techniques.

Normal human cell lines

1) colonic enterocytes
2) esophageal keratinocytes
3) fibrobasts and smooth muscle cells
4) endothelial cells
5) Organotypic (three dimensional) culture systems: colonocytes or esophageal keratinocytes with a substrate of fibroblasts, smooth muscle cells and endothelial cells.

Malignant Cell Lines
Well-characterized human cell lines originating from carcinomas of the following:

1) colon and rectum
2) esophagus
3) pancreas
4) stomach
5) liver
Also, techniques are available to isolate fibroblasts.



Cell and Developmental Biology Microscopy Core (Penn)

Type: Core Laboratory

Summary:

The Cell & Developmental Biology (CDB) Microscopy Core is a full-service facility serving the entire University of Pennsylvania community. Our aim is to provide personalized assistance on all aspects of imaging, from tips on sample preparation to training on one of our microscopes to processing and analysis of image data. Our facility currently houses five confocal and three widefield light microscopes, a scanning electron microscope, and several computers dedicated to image processing and analysis.



Center for Advanced Computed Tomography Imaging Services (Penn)

Type: Core Laboratory

Summary:

Radiologists, physicists, and technologists help researchers utilize the resources available within the Department of Radiology at the University of Pennsylvania. Our mission is to oversee proposed research protocols that involve human, animal, phantom or specimen studies in an effort to achieve two goals:
• To ensure that all research performed on the CT scanners comply with CACTIS and University policy, and Federal Regulations
• To determine if CACTIS can maintain the resources required to carry out each research protocol, including personnel, software, hardware and scan time

Under the direction of the Chair, Dr. Harold Litt, the CACTIS committee reviews proposed research requests and makes decisions and recommendations accordingly.

Additionally, CACTIS:
• Oversees the day-to-day operations of all CT procedures associated with research protocols
• Provides information regarding the use of the CT facilities to the research community at the University of Pennsylvania
• Provides CACTIS users with all of the policies of the institution governing research
• Ensures that CACTIS is in compliance with these policies



Center for Advanced Magnetic Resonance Imaging and Spectroscopy (Penn)

Type: Core Laboratory

Summary:

Mission
The overall mission of CAMRIS is to provide oversight in the responsible use and application of Magnetic Resonance in research through leadership, education, and guidance. These principles are manifest in the development of new research and collaborations inside and outside the Radiology Department which can translate into advanced clinical techniques; training in safe and efficient use of this investigative tool and dissemination of current, accurate and evolving MR Technology; scheduling upgrades of MR Systems and facilities; scheduling systems operations and personnel within the MR department; and receiving and acting on recommendations pertaining to the administration of CAMRIS Facilities.



Center for Advanced Retinal and Ocular Therapeutics

Type: Center

Summary:

Center for Advanced Retinal and Ophthalmic Therapeutics (CAROT) was established to advance the development of novel biologic and small molecule therapeutics for retinal and ocular diseases through a balanced commitment to basic research, translational development, and the clinician/patient communities. With a solid foundation of clinically relevant ocular research, CAROT positions itself as a global premiere center for translating novel bench research, such as gene and cell therapies, into the clinics and the market. The center leads, consults and collaborates on projects at all stages of clinical development. We aim to establish an efficient and effective translational infrastructure, and foster a supportive environment for both academic and commercial communities.

To achieve our center mission, we have established a number of core facilities that are available to our collaborators and colleagues.



Center for Analyzing Evolved Structures as Optimized Products

Type: Center

Summary:

Though the progress of human invention has accelerated at an astounding pace from the ancient wheel, to wrought steel, to the modern widget, the products of natural selection and evolution over hundreds of millions of years dwarves mankind’s accomplishments. In order to address society’s ever more pressing need to conserve water, nutrients, energy, and sustainability in a highly diverse set of circumstances and environments, we aim to build a dynamic and highly collaborative center that will bring together materials scientists, chemical and biomolecular engineers, mechanical engineers, robotics engineers, systems engineers, and computer scientists with expertise in both active and real time control of materials, metamaterials, and structures. It will have cross-cutting interactions with existing centers at Penn, including LRSM, REACT, PRECISE and GRASP, Kleinman Center for Energy Policy, TC Chan Center, will go beyond fundamental questions in materials and structures, and find innovative solutions at the system level by creating a new paradigm of algorithmic design of products that transcends scales.

We will build new bridges between SEAS, SAS, and PennDesign to turn our knowledge of convergently evolved systems in nature into disruptive and sustainable technology. To do so, we will connect engineers with evolutionary biologists, physicists, chemists and architects. In the form of buildable, foldable, responsive, and commodity-scale materials, we expect our technology will interact with, and thus, impact the human habitat in water, heat, and light management. We will search common motifs and designs that span and transcend species, for instance, in butterfly wings, pollen grains, insect trachea, and vascular structures in plants; investigate their convergent strategies, and design, fabricate and assemble such structures across the scales with optimized response to common environmental stresses.



Center for Animal Health & Productivity

Type: Center

Summary:

The Center for Animal Health and Productivity (CAHP) was established in 1986 to implement teaching, research and service programs directed toward the improvement of health and productivity in food animal herds and flocks.

These programs involve an integrated approach making use of our expertise in clinical nutrition, reproduction, health economics, and computer science, in addition to conventional specialties in veterinary medicine.

Our focus is the maintenance of physical and economic health in the whole animal population rather than clinical treatment of individual sick animals.



Center for Animal Transgenesis & Germ Cell Research

Type: Center

Summary:

The Center for Animal Transgenesis Core Facility at University of Pennsylvania School of Veterinary Medicine provides an array of embryological services for the generation and preservation of genetically engineered transgenic and gene knockout mice. The Transgenesis Core is equipped with state-of-the-art equipment and is supported by fully trained personnel. It is located in a barrier, pathogen-free small animal facility supervised by trained veterinarians.



Center for Applied Genomics (CHOP)

Type: Core Laboratory

Summary:

Our Mission

The mission of the Center for Applied Genomics (CAG) is to develop new and better ways to diagnose and treat children affected by rare and complex medical disorders. The CAG is a specialized Center of Emphasis at the Children’s Hospital of Philadelphia with the primary goal of translating basic research findings to medical innovations.

We aim to discover genetic causes for the most prevalent diseases of childhood including ADHD, asthma, autism, diabetes, epilepsy, obesity, schizophrenia, pediatric cancer, and a range of rare diseases. Ultimately, our objective is to generate new diagnostic tests and to guide physicians to the most appropriate therapies.

The CAG is one of the world's largest genetics research programs, and the only center at a pediatric hospital to have large-scale access to state-of-the-art high-throughput genomics technology.

CAG Services:

The Center for Applied Genomics has an experienced team of researchers analyzing the immense amount of data generated from our high-throughput facility. We have expertise in carrying out large scale NGS, GWAS, CNV, and methylation studies.



Center for Autism Research (Penn/CHOP)

Type: Center

Summary:

The Center for Autism Research coordinates and supports research into the causes of the autism spectrum disorders (ASDs). The Center's programs of research are predicated on the belief that effective treatments will follow from a better understanding of causal mechanisms.

Led by Robert T. Schultz, PhD, in collaboration with other Children's Hospital faculty, the CAR establishes a broad-based research program aimed at fundamental discoveries into causes of the ASDs. The Center establishes programs of research focused on developmental, neurobiological and genetic mechanisms of the ASDs, with a particular emphasis on understanding the individual differences across the spectrum. Affiliated faculty also engage in research to evaluate the current standard of care for patients with an ASD and to test the effectiveness of promising new treatments.



Center for Biomedical Image Computing & Analytics

Type: Center

Summary:

The Center for Biomedical Image Computing and Analytics (CBICA) was established in 2013, and focuses on the development and application of advanced computational and analytical techniques that quantify morphology and function from biomedical images, as well as on relating imaging phenotypes to genetic and molecular characterizations, and finally on integrating this information into diagnostic and predictive tools in an era of personalized medicine. As Imaging has entered its information era, there has been an increased need to understand and quantify the complex information conveyed by biomedical images. Computational methods offer the potential for extracting diverse and complex information from imaging data, for precisely quantifying it and therefore overcoming limitations of subjective visual interpretation, and for finding imaging patterns that relate to pathologies. They can therefore contribute significantly to automated, reproducible and quantitative interpretations of biomedical images. Although many computational imaging technologies have been developed, they have been largely restricted to methodological and clinical research studies, and their translation to the clinic has been limited. One of CBICA's main goals is to translate advanced computational and analytical imaging methods to the clinic, by providing a forum in which interactions between researchers and clinicians facilitate the bidirectional flow of ideas, algorithms and data between the laboratory and the clinic.



Center for Biomedical Imaging

Type: Center

Summary:

The CBI is a type 1 center within Radiology and coordinates the translational bioimaging center of the Institute for Translational Medicine and Therapeutics (ITMAT). The CBI is organized into a Basic Imaging Research Division, Translational Research Division, and imaging Core Facilities supported by the CBI Administration. Although initially the CBI will focus primarily on in-vivo imaging, it is appreciated that tissue analysis including digital pathology and molecular diagnostics share many of the same technical challenges and we would expect to engage the pathology and cellular imaging community over time.



Center for Brain Injury and Repair

Type: Center

Summary:

The Penn Center for Brain Injury and Repair (CBIR) is one of only five programs nationwide designated by the National Institutes of Health as a Brain Injury Center.

CBIR is a multi-disciplined network of more than 25 principal investigators and their teams representing the diverse areas of expertise critical to the research, assessment, diagnosis and treatment of Traumatic Brain Injury (TBI). For over 30 years, CBIR has coordinated the science and practice of Neurosurgery, Bioengineering, Pharmacology, Pathology, Neurology, Pediatrics, Neuroradiology, Rehabilitation, and Emergency Medicine in order to improve all aspects of TBI patient care and outcomes. The CBIR cooperative constitutes one of the strongest, most integrated research teams in the world working together to discover, document and implement ways to significantly improve the quality of life for people suffering from TBI and to prevent the "secondary" or delayed injuries that are initiated by brain trauma.



Center for Causal Inference

Type: Center

Summary:

The Center for Causal Inference (CCI) is a research center that is operating under a partnership between Penn’s Center for Clinical Epidemiology and Biostatistics (CCEB); the Department of Biostatistics and Epidemiology, Rutgers School of Public Health; and Penn’s Wharton School.

The mission of the CCI is to be a leading center for research and training in the development and application of causal inference theory and methods.



Center for Cellular Immunotherapies

Type: Center

Summary:

Building on Penn's leadership in Translational Medicine and investigator initiated clinical trials established over the past two decades, CCI is focused on coordinated interdisciplinary approaches for the discovery and development of core platform technologies for personalized cell and gene based therapies in cancer, autoimmune disease, infectious disease, and organ and bone marrow transplantation. CCI interacts with a coalition of investigators in nearly all departments and centers in the Perelman School of Medicine; driving clinical translation of novel and investigational immune-based therapies. CCI will fuse clinical investigators and scientists within the Abramson Cancer Center, the Institute for Immunology, the Center for AIDS research, the Cardiovascular Institute and the Center for Orphan Disease Research and Therapy, and the program in novel biotherapeutics within the Institute of Translational Medicine and Therapeutics. The CCI mission is to accelerate and synergize efforts that quickly transition fundamental immunobiology research into the clinic; bringing value to the University of Pennsylvania and it's faculty beyond existing department, center, and institutional structures.



Center for Child Injury Prevention Studies (CHOP)

Type: Center

Summary:

The Center for Child Injury Prevention Studies (CChIPS) is a National Science Foundation Industry/University Cooperative Research Center that focuses exclusively on making children and adolescents safer. Through CChIPS, researchers from CHOP, the University of Pennsylvania, and The Ohio State University work side by side with industry members to conduct translational research that is practical to industry. Of the more than 60 I/UCRC designated centers nationwide, CChIPS is the only one that focuses solely on child injury prevention. This synergistic collaboration between industry and academia creates an ideal environment for generating ideas for new research projects and to leverage shared expertise and resources.

The CChIPS method applies the science of biomechanical epidemiology to the analysis of crash-related data. A unique and comprehensive approach, biomechanical epidemiology integrates the principles of engineering, behavioral science, and epidemiology into study designs.



Center for Childhood Cancer Research (CHOP)

Type: Center

Summary:

The Center for Childhood Cancer Research was established in 2007 as a Center of Emphasis in the CHOP Research Institute and has developed a highly integrated basic, translational and clinical research environment dedicated to eradicating the pain and suffering caused by cancer in children. The Center brings together the diverse talents of investigators in the Hospital's renowned multidisciplinary program in pediatric cancer research, patient care and genomics.

The Center's organization supports an environment where basic scientists interact with master clinicians around the central theme of improving cure rates through translational research initiatives. Recruitment of leading talent in areas that can facilitate this progress, spanning the laboratory and clinical research ends of the spectrum, enables the Center's mission. Key to the Center's success is translating the latest scientific findings obtained from cutting-edge basic research into innovative clinical trials designed to dramatically improve the cure rates for pediatric cancers while simultaneously eliminating long-term side effects.

Stephen P. Hunger, MD, serves as director of the Center for Childhood Cancer Research and chief of the Division of Oncology at The Children's Hospital of Philadelphia.



Center for Clinical Epidemiology and Biostatistics

Type: Center

Summary:

What we do: The CCEB is an interdisciplinary and interdepartmental program that links clinical epidemiology and biostatistics within the Perelman School of Medicine, the University of Pennsylvania Health System, and the Penn community.

Together we must answer and anticipate the pressing health issues we face as a society. At the CCEB we rise to that challenge through research and training in epidemiology and in biostatistics. We solve problems that patients and populations face. What that looks like in practice varies with the challenge at hand, be it a disease in one of the body’s major systems or a threat such as gun violence.

We have long been known as an innovative community where experts from all across the Perelman School of Medicine (PSOM) gather to investigate the central questions of population health. Who suffers a given health problem, and how often does it occur? What causes it; how can we treat it or prevent it?



Center for Clinical Pharmacology

Type: Center



Center for Cognitive Neuroscience

Type: Center

Summary:

Penn's Center for Cognitive Neuroscience is a multidisciplinary community dedicated to understanding the neural bases of human thought. Our current research addresses the central problems of cognitive neuroscience, including perception, attention, learning, memory, language, decision-making, emotion and development.

Our methods are equally diverse, and include functional neuroimaging, behavioral testing of neurological and psychiatric patients, transcranial and direct current magnetic stimulation, scalp-recorded event-related potentials, intracranial recording, computational modeling, candidate gene studies and pharmacologic manipulations of cognitive processes.



Center for Cognitive Therapy

Type: Center

Summary:

The Center for Cognitive Therapy provides an active, directive, problem-focused outpatient therapy for a variety of clinical concerns, including mood disorders, anxiety and panic, life stressors, and many other issues. Patients will meet with a caring, respectful professional who will listen to their concerns, conceptualize the problem, and assist them in generating solutions and in building better psychological skills. The short-term and long-term benefits of cognitive therapy (also known as cognitive-behavioral therapy) have been strongly supported by a wealth of research.



Center for Community & Population Health

Type: Center

Summary:

The Center for Community and Population Health (CCPH) focuses on research and community initiatives to reduce health disparities through improved access to care and collaborative partnerships. Examples of initiatives housed within CCPH include the National Center for Integrated Behavioral Health, Cancer Screening Outreach and Navigation, and our Community Clinic / Provider partnerships.



Center for Computational and Genomic Medicine

Type: Center

Summary:

The Center for Computational and Genomic Medicine, established in 2018 with the recruitment of Yi Xing, PhD, drives biological discoveries and medical innovations by integrating genomics, big data, and computing. The Center contributes to CHOP's entire ecosystem of research, including collaborations with other key Centers of Emphasis, including the Center for Cellular and Molecular Therapeutics and the Department of Biomedical and Health Informatics.

The Center provides an intellectual home for recruiting tenure track faculty who are not only adept at using existing technology, but also can develop new genomic technologies or computational tools that can be offered to a broader community of scientists. The Center has hybrid character — computational biology research will pave the way for new projects in wet laboratories.

Under Dr. Xing's direction, the Center aims to serve as an engine for technological and biomedical innovation, providing tight interaction from both the basic science and technology side, as well as the translational and clinical side of genomics and computational biology.



Center for Data-Driven Discovery in Biomedicine

Type: Center

Summary:

The Center for Data-Driven Discovery in Biomedicine (D3b) is a translational biomedical research Center at Children’s Hospital of Philadelphia, which brings together expertise across disciplines to accelerate bench-to-bedside research on behalf of children. The D3b Center is founded on convergence research principles that define its partnership with other leading researchers, clinicians, and patient advocates, spanning across areas of expertise, across institutions, and across the globe — to collaboratively generate the quantity and quality of information and increased understanding needed to accelerate discoveries and improve treatments for pediatric diseases.

D3b's open-science model allows the Center to securely generate and integrate large volumes of complex genomic, clinical, and patient data, supported by open-access, D3b-developed platforms that empower collaborative discovery. In addition to its clinical and scientific collaborations, D3b is a champion of the patient community, working alongside more than 50 nonprofit foundations and patient advocates.



Center for Dynamic Imaging of Nervous System Function (CHOP/Penn)

Type: Center

Summary:

The Center for Dynamic Imaging of Nervous System Function was founded in 2003 with funds from NINDS to CHOP and supports from CHOP and U Penn Department of Neuroscience and Department of Neurology. The Center has been catalyzing new studies and augmenting existing studies in the qualifying NINDS-funded laboratories. The resultant synergistic interactions between faculty members will continue to revolutionize our ability to study basic function of nervous system function and enhance understanding of these functions in human health and diseases.



Center for Engineering MechanoBiology

Type: Center

Summary:

The Center for Engineering MechanoBiology (CEMB) is a multi-institutional Science and Technology Center funded by the NSF to advance the study of mechanical forces in molecules, cells, and tissues in plants and animals.



Center for Functional Neuroimaging

Type: Center

Summary:

The Center for Functional Neuroimaging (CfN) was created in 2003 to advance the general interests of the brain imaging community at the University of Pennsylvania through targeted methods development, symposia and colloquia, handling of regulatory issues, and fund-raising efforts.

The CfN is a Type I Center within the Department of Radiology that draws upon multidisciplinary and interdisciplinary expertise and resources available at the University of Pennsylvania, involving contributions from physics, engineering, radiochemistry, computer sciences, psychiatry, psychology, cognitive and systems neuroscience, and the clinical neurosciences.



Center for Global Health

Type: Center

Summary:

The CGH mission is to improve health equity worldwide – through enhanced public health awareness and access to care, discovery and outcomes based research, and comprehensive educational programs grounded in partnership.



Center for Health Behavior Research

Type: Center

Summary:

Established in 2009, the University of Pennsylvania's Center for Health Behavior Research is an institution-wide collaborative effort, dedicated to conducting health behavior research, fostering advances in measurement of health behaviors, advancing the use of health behavior theory, and promoting collaboration among faculty, fellows, and students. Through theory-based research and a broad focus on measurement of health behavior, the CHBR contributes to both fundamental and applied research to help individuals, populations, and clinicians improve health behaviors and outcomes. The CHBR is a Type I center that is housed within the Center for Clinical Epidemiology and Biostatistics (CCEB) at the Perelman School of Medicine.



Center for Health Incentives & Behavioral Economics

Type: Center

Summary:

The Center for Health Incentives and Behavioral Economics (CHIBE), housed within the Department of Medical Ethics & Health Policy at the Perelman School of Medicine, conducts behavioral economic research that makes significant contributions to reducing the disease burden from major U.S. public health problems, such as tobacco dependence, obesity, and medication non-adherence. CHIBE’s mission is to inform health policy, improve health care delivery and increase healthy behavior.



Center for Healthcare Improvement & Patient Safety

Type: Center

Summary:

The core mission of the Center for Healthcare Improvement & Patient Safety at the University of Pennsylvania is to improve the quality of healthcare utilizing a comprehensive approach integrating health services research and quality improvement and patient safety training.



Center for Hereditary Retinal Degenerations

Type: Center

Summary:

The Center for Hereditary Retinal Degenerations is a clinical facility that provides diagnostic evaluation and clinical consultation for patients with inherited forms of retinal degenerative diseases and performs research to better understand the basis and progression of these conditions.

At the Center for Hereditary Retinal Degenerations, a team of clinicians, scientists, and vision specialists perform psychophysical tests (like color vision, perimetry, dark adaptation, full-field stimulus testing), imaging tests (like OCT, autofluorescence imaging), and electrophysiological tests (like ERG and EOG) on patients in order to diagnose and monitor the progression of the retinal diseases.

The ultimate goal is to provide treatment for these incurable disorders. At our Center for Hereditary Retinal Degenerations, there are currently ongoing and upcoming early-phase clinical trials that test the safety and efficacy of potential therapies in patients who have these diseases.



Center for Host Microbial Interactions

Type: Center

Summary:

The Penn Vet Center for Host-Microbial Interactions (CHMI) formed in 2013 as an interdisciplinary center that helps faculty leverage cutting-edge genomic approaches to understand how microbes (viruses, bacteria and parasites) influence animal health and disease. These so-called ‘host-microbial interactions’ represent an ongoing evolutionary arms-race between mammals and the microbial world we live in.

Most people are familiar with well-known viral infections caused by influenza, ebola; or bacterial infections caused by Salmonella or E. coli. In each case, these pathogens can spread from animals to people, highlighting the notion that humans, animals, and our environment are inextricably connected by infectious diseases — a concept termed ‘One-Health’.

In the past few years it has become increasingly clear that just as there are microbes that cause disease, there are also beneficial microbes that are crucial in maintaining health. Beneficial bacteria colonize our gut, skin and urogenital tract at birth and these complex microbial communities - termed a microbiome - develop just as our organ systems develop.

Researchers at Penn Vet, with assistance from CHMI, are actively studying the role of these the microbiome in animal diseases ranging from atopic dermatitis, inflammatory bowel disease, to mental health.

Our mission is to better understand and treat disease through the study of microbes and the diverse ways animals respond to viruses, bacteria and parasites.

Our Goals:
-- Establish an internationally recognized center that is the first of its kind at veterinary schools
-- Engage the broader Penn Vet community in host-microbial research that leverages ‘omic approaches
-- Develop stronger ties across schools at UPenn
-- Leverage spontaneous animal models of disease commonly seen at the Penn Vet Ryan Hospital
-- Establish a convenient ‘in-house’ solution for Penn Vet labs to analyze complex data sets that result from systematic studies of gene expression, microbial whole-genome sequencing, and the composition of microbial communities living on animals.



Center for Human Phenomic Science

Type: Center

Summary:

The Center for Human Phenomic Science (CHPS) was formed with the receipt of the Clinical and Translational Science Award (CTSA), an NIH Roadmap initiative. The CHPS has child and adult specific components at the Children's Hospital of Philadelphia (CHOP) and University of Pennsylvania, respectively, as well as joint components. The CHPS merged the General Clinical Research Centers (GCRCs) at both institutions, and introduced new programs and services. The goal of the CHPS is to provide the resources, environment, operations, and training to support and promote high-quality clinical and translational research by qualified investigators.



Center for Injury Research & Prevention Core (CHOP)

Type: Core Laboratory

Summary:

The Center for Injury Research and Prevention is dedicated to advancing the safety and health of children, adolescents, and young adults through comprehensive research resulting in practical tools to reduce injury and promote recovery.

To advance science and create tangible impact, the Center:

1) Addresses children's injuries comprehensively - from before-the-injury prevention to after-the-injury healing
2) Translates rigorous scientific research to usable, age-appropriate tools and practical steps for families, professionals, and policymakers
3) Asks and answers important questions from an interdisciplinary perspective, with expertise in Behavioral Sciences, Clinical Care, Engineering, Epidemiology and Biostatistics, Human Factors, Public Health and Communications
4) Engages with a broad range of organizations from universities and government entities to non-profit groups, foundations and corporations, to ensure that research results extend to the real world

CIRP turns "research into action" by determining priorities for pediatric injury research, establishing key collaborations and networks to apply that research, and providing education, training and professional development across three injury science disciplines: Behavioral Science, Engineering, and Epidemiology and Biostatistics. The Center also utilizes Outreach and Dissemination to translate the research across these disciplines into real-world applications.



Center for Interdisciplinary Research on Nicotine Addiction

Type: Center

Summary:

The Center for Interdisciplinary Research on Nicotine Addiction was created in the Department of Psychiatry at the University of Pennsylvania Perelman School of Medicine in 2001. Continuously funded by a P50 Transdisciplinary Tobacco Use Research Center Grant from the National Cancer Institute and National Institute on Drug Abuse, and additional extramural support, CIRNA investigators conduct interdisciplinary research focused on improving the treatment of nicotine dependence for smokers who wish to quit smoking. The highly collaborative research of CIRNA investigators spans from "cells to society", crossing departments and schools at the University of Pennsylvania and extending to institutions across North America. Over the past 15 years, CIRNA has evolved to include 4 overarching and interrelated programs of research.



Center for Magnetic Resonance and Optical Imaging

Type: Center

Summary:

We are a NIBIB Biomedical Technology Research Center in the Perelman School of Medicine at the University of Pennsylvania.
The CMROI is dedicated to the development and application of innovative, novel magnetic resonance and optical imaging techniques. The facility’s core sections provide research and computing resources for numerous user, collaborative, and training projects.

The focus of this resource is on developing instrumentation, methodologies, and data analysis techniques for the quantitative assessment of functional, structural, and metabolic parameters in humans with the use of multinuclear magnetic resonance, novel spectral, perfusion, functional, and optical imaging techniques.



Center for Mitochondrial & Epigenomic Medicine (CHOP/Penn)

Type: Center

Summary:

The Center of Mitochondrial and Epigenomic Medicine (CMEM) is poised to advance the understanding of, and potential treatments for, a multitude of disorders and diseases by focusing on mitochondria, tiny structures within our cells that produce 90 percent of the body's energy. Because nothing in the cell works without energy, scientists and physicians need to understand the flow of energy and the disturbance of the flow of energy during disease. Also essential is communication between the mitochondria and nuclear DNA, which enables the mitochondria to signal to the nucleus that there is enough energy to grow and reproduce. This crosstalk is mediated by the epigenome, inherited modifications in gene expression caused by tags or proteins that bind to DNA.

Led by Douglas C. Wallace, Ph.D., a pioneer and internationally prominent scientist in the field of human mitochondrial genetics, the center is investigating mitochondrial and epigenomic dysfunction in a wide range of clinical problems such as autism, epilepsy, heart disease, diabetes and obesity, forms of blindness, Alzheimer and Parkinson disease, cancer, and aging. In addition to examining the essential roles of mitochondria, the CMEM team is exploring how mitochondrial genes influence adaptation to extremes in our environment such as arctic cold, tropical heat, or high altitude. CMEM also focuses on preclinical studies relevant to developing therapies for mitochondrial dysfunction, for which few effective clinical treatments currently exist.

VISION
Our Center is founded on the premise that systemic mitochondrial energy deficiency, not organ-specific structural defects, underlies most metabolic and degenerative diseases, cancer, and aging. This transformative idea suggests powerful new approaches for diagnosis and treatment of both rare and common diseases.

MISSION
The mission of the Center for Mitochondrial & Epigenomic Medicine (CMEM) is to unite the biomedical scientists, clinicians, and patients and their families within The Children’s Hospital of Philadelphia and The Perelman School of Medicine at the University of Pennsylvania to determine the causes and generate the cures for metabolic and degenerative diseases, cancer, and aging. To achieve this ambitious goal, the Center is applying a new biomedical paradigm which posits that most “complex” diseases result from perturbations in the mitochondrial and cellular energy generating systems rather than from organ-specific structural defects. These bioenergetic defects may result from mutations in the mitochondrial DNA or nuclear DNA, alterations in gene expression (epigenomics), or from environmental insults. Because energy is the paradigm to metabolic diseases such as diabetes, obesity, and cardiovascular disease; degenerative diseases such as autism, Down Syndrome, Leigh Syndrome, Alzheimer Disease, Parkinson Disease, forms of deafness and blindness, multiple sclerosis, heart disease, and renal failure; a variety of forms of cancer including prostate, breast colorectal; and aging which will ultimately affect everyone. Therefore, CMEM’s work will contribute to the health and wellbeing of all people: embryos, fetuses, children, adults, and elders



Center for Molecular Studies in Digestive and Liver Diseases

Type: Center

Summary:

The mission of our NIH-funded Digestives Diseases Research Center is to unite investigators with interests in digestive, liver and pancreatic physiology and disease in the exploration of creative experimental approaches as well as to stimulate others to enter this area of research. The scientific focus of the Center revolves around the molecular controls of cellular growth and differentiation in the digestive tract, liver and pancreas with the goal of achieving a new level of integration in biology, pathobiology, and therapy. The targeted areas of pathobiology include genetic, malignant, and inflammatory disease of the liver, pancreas and digestive tract. The Center is divided into three thematic areas:

1) Developmental biology and genetics
2) Microbe and host immune response
3) Cell growth and differentiation

Center resources include four scientific cores to support experimental procedures for Center Investigators, a pilot project program, weekly seminar series, an annual retreat, a journal and reference library, and various enrichment programs.



Center for Neurobiology and Behavior

Type: Center

Summary:

The mission of the Center continues to be to strengthen behavioral neurobiology at the Perelman School of Medicine at the University of Pennsylvania and the pre-eminence of basic research programs in the Department of Psychiatry. The primary scientific objective of the CNB is to foster interdisciplinary research and training in the basic neural and molecular mechanisms underlying complex behavior, including but not limited to psychopathologic behavior. The Center complements and extends the research program of the Department of Neuroscience by supporting an integrated systems approach to the neurobiology of mammalian and human behavior.



Center for Neurodegenerative Disease Research

Type: Center

Summary:

The Center for Neurodegenerative Disease Research (CNDR) at the University of Pennsylvania brings together researchers investigating the causes and mechanisms of neurodegenerative diseases that occur more frequently with advancing age.

Diseases being studied include:
• Alzheimer's disease (AD)
• Parkinson's disease (PD)
• other Lewy Body Disorders (LBD)
• Frontotemporal Lobar Degeneration (FTD)
• Frontotemporal Disease with Parkinsonism (FTDP-17)
• Amyotrophic Lateral Sclerosis (ALS)
• Primary Lateral Sclerosis (PLS)
• other Motor Neuron Diseases



Center for Neuromodulation in Depression and Stress

Type: Center

Summary:

Our mission at the Center for Neuromodulation in Depression and Stress aims to leverage cutting edge neuroscience for personalized treatment. Since founded in 2013, CNDS consistently capitalizes on and augments the efforts of the outstanding neuroscience community at the University of Pennsylvania by facilitating collaboration within and across various specialties. Through these connections, and the generosity of our funding agencies, we are able to spur new research on the science and treatment of affective disorders.



Center for Outcomes Research (CHOP/Penn)

Type: Center

Summary:

The Center for Outcomes Research (COR) at the Children's Hospital of Philadelphia is a multidisciplinary academic research center that employs rigorous outcomes research methodology to improve health and healthcare for both children and adults. The COR aims to improve health outcomes through the development, testing, and application of innovative metrics which serve to transform the quality and efficiency of healthcare. In partnership with the University of Pennsylvania, we strive to train health services researchers of tomorrow by mentoring students, fellows, junior faculty, and clinicians interested in the field.



Center for Pediatric Clinical Effectiveness (CHOP)

Type: Center

Summary:

The mission of the Center for Pediatric Clinical Effectiveness is to discover and disseminate knowledge about best practices in the management of pediatric disease. Led by Theoklis Zaoutis, MD, MSCE, the center provides infrastructure for training in and performance of clinical effectiveness research — research aimed at understanding the best ways to prevent, diagnose and treat diseases in children.

The center builds on the existing research expertise and infrastructure at Children's Hospital to create an environment and opportunities for the exchange of ideas among clinical effectiveness researchers, facilitate the performance of clinical effectiveness research through a pilot grant program and assistance with projects that use existing national and local databases, and educate the next generation of clinical effectiveness researchers in the methods of clinical epidemiology. In addition, the center aims to partner with other Hospital organizations to improve the care of our patients and disseminate research findings that define the most effective healthcare for children.



Center for Personalized Diagnostics

Type: Center

Summary:

The Center for Personalized Diagnostics (CPD) is a joint initiative between Penn Medicine's Department of Pathology and Laboratory Medicine and the Abramson Cancer Center to support precision medicine at Penn.

The CPD aims to uncover genetic mutations within a patient's own cancer that can allow for a more targeted and personalized "precision" treatment strategy.

By integrating Molecular Genetics, Pathology Informatics, and Genomic Pathology for precision-medicine diagnoses, the CPD can help physicians provide an appropriate and individualized treatment plan for their patients.

Precision genomic diagnostics can identify patients who might benefit from current, often cutting-edge therapies, while sparing those who do not have a particular genetic signature from the costs and side effects of certain treatments.

Most importantly perhaps, precision medicine can significantly reduce the time conventional diagnostic approaches require, allowing patients and their loved ones to make informed decisions – when time matters most.



Center for Pharmacoepidemiology Research and Training

Type: Center

Summary:

The Center for Pharmacoepidemiology Research and Training (CPeRT) was founded in 2012 as a center within the Center for Clinical Epidemiology and Biostatistics (CCEB). Its mission is to:

• Provide an intellectual home for pharmacoepidemiology at Penn

• Promote the conduct of applied and methodologic pharmacoepidemiology research

• Foster training of the next generation of pharmacoepidemiologists

• Expand number of Penn faculty members performing pharmacoepidemiology research


CPeRT members are leaders in the development and use of large administrative and medical record databases for studying drug effects. CPeRT is a center within the Developing Evidence to Inform Decisions about Effectiveness (DEcIDE) Network funded by the Agency for Healthcare Research and Quality, and a center in the FDA-funded Scientific Program to Support Epidemiology Investigations. CPeRT members also edit Pharmacoepidemiology, 5th edition and Textbook of Pharmacoepidemiology.



Center for Preventive Ophthalmology and Biostatistics

Type: Center

Summary:

The Center for Preventive Ophthalmology and Biostatistics (CPOB) leads and collaborates in ophthalmic clinical research through study design, protocol development, comprehensive data management, cutting-edge interpretation of fundus images, statistical analysis, and interpretation of data. The center was established in the Department of Ophthalmology in 1994 by Maureen Maguire, PhD, an internationally recognized leader in the design and execution of clinical trials in ophthalmology.

The CPOB has been the home for the coordinating centers of several multicenter studies sponsored by NIH or industry over the past 10 years, during which the staff has grown from 3 people to approximately 20. A major strength of the CPOB is the expertise of the members in appropriately applying clinical research methods to ophthalmologic applications. CPOB staff provides expertise in all phases of clinical research, including study design, study initiation at the clinical center, on-going quality assurance, study closeout, data analysis and manuscript writing.

Activities within the CPOB are in three broad areas:

1) Coordinating Center activities for several multicenter clinical trials. These trials are sponsored both by industry and by the National Eye Institute, an agency within the National Institutes of Health;
2) Biostatistical consulting for clinical and basic scientists within the Department of Ophthalmology and in other Penn departments on study design, data analysis and interpretation. These collaborations have yielded more than 50 publications in peer-reviewed literature over the past 5 years.
3) Scheie Image Reading Center (SIRC) for expert interpretation of retinal images for multi-centered clinical trials.



Center for Psychotherapy Research

Type: Center

Summary:

The Center for Psychotherapy Research (CPR) is a research unit of the Department of Psychiatry at the University of Pennsylvania. Faculty members conduct a wide range of studies on the process and outcome of different types of psychotherapies. The primary long-term vision of CPR is driven by questions about which treatments work for what kinds of psychiatric disorders. Research in CPR is designed to test hypotheses about the means through which effective treatments work.



Center for Public Health Initiatives

Type: Center

Summary:

The University of Pennsylvania's Center for Public Health Initiatives (CPHI) is a university-wide center which was founded in 2007 by the Provost’s Office. We promote interdisciplinary research, education and practice in public health.

The CPHI acts as the organizational home and academic base for Penn’s multi-disciplinary, inter-school Master in Public Health (MPH) degree program, which is one of the first multi-school accredited MPH Programs in the U.S.

The University of Pennsylvania's Center for Public Health Initiatives' mission is to educate and train new and emerging public health leaders, foster multi-disciplinary collaborations, and promote excellence in public health research and community partnerships. To achieve this mission, we:
-- Enhance public health visibility and focus, and provide an institutional home for public health in the University
-- Support and foster growth of our world-class, multidisciplinary Master of Public Health (MPH) degree program
-- Provide high quality learning opportunities, seminars and institutes for students, faculty, alumni, and practitioners
-- Foster the application of evidence-based approaches and experiences in public health, emphasizing translation of science into sustainable health improvements in communities
-- Facilitate collaboration for public health related research, involving faculty in multiple existing centers, institutes, and departments across the university



Center for Pulmonary Hypertension Research

Type: Center

Summary:

Established in 2006, The Penn Center for Pulmonary Hypertension Research (CMREF) was formed as a part of nation-wide pulmonary hypertension research network. The CMREF mission is to aid in uncovering the etiology and pathogenesis of many forms of pulmonary arterial hypertension (PAH), in pursuit of the ultimate goal of its treatment and cure. Our Center has been helping to rapidly expand knowledge in PAH research, diagnoses and treatment by providing cells isolated from PAH patients and control subjects. We have successfully isolated different types of vascular cells from over 140 subjects. These materials have been banked and distributed to support the further research for our group as well as on- and off-campus researchers including NIH-R03 recipients to uncover the causes and pathogenesis of idiopathic pulmonary arterial hypertension (IPAH), in pursuit of the ultimate goal of its treatment and cure.



Center for Research on Reproduction and Women's Health

Type: Center

Summary:

The mission of the Center for Research on Reproduction & Women’s Health (CRRWH) at the Perelman School of Medicine of the University of Pennsylvania is to advance the fields of reproduction and women’s health through (1) interdisciplinary research and training in basic, translational and clinical investigation and (2) promotion of the well being of women through the study of gender-specific biology and female-specific health and disease.

Utilizing team science, the investigators of the Center aim to:

-- Understand the pathophysiology and health sequelae, and develop treatments for conditions of public health importance such as menopause, endometriosis, fibroids, polycystic ovary syndrome and obesity, urinary incontinence and gynecologic cancers.
-- Increase our understanding of human reproduction through the study of male and female infertility, fertility regulation, pregnancy and pregnancy outcomes.
-- Expand our basic knowledge of the developmental origins of neonatal, pediatric and adult health and disease through the study of pre-implantation and in utero development.
-- Unravel the complex disease states that adversely affect maternal and child health and test interventions to reduce maternal and fetal morbidity and mortality.



Center for Resuscitation Science

Type: Center

Summary:

The overall mission of the Center for Resuscitation Science is to improve the survival and functional outcome of victims of sudden cardiac arrest and shock. Our approach includes both discovery of new therapies and optimizing the implementation of proven therapies.

To achieve our mission, we have assembled a multidisciplinary team of scientists and clinicians with backgrounds in biochemistry, cellular physiology, neuroscience, mechanical engineering, bioengineering, medicine, pediatrics, emergency medicine, anesthesia, surgery, trauma, critical care, nursing, veterinary medicine, epidemiology, and health policy. In addition, we have engaged both patient organizations and industry as partners in the discovery and implementation process. The scope of our research includes basic science, translational models, clinical trials, epidemiology, and health policy.

The Center for Resuscitation Science has also established strong national and international collaborations that aim to enhance worldwide resuscitation research. Finally, the training programs in both research and clinical practice at Center for Resuscitation Science focus on developing leaders in the field and the next generation resuscitation scientists.



Center for Sleep and Circadian Neurobiology

Type: Center

Summary:

Sleep is universal much like our need to eat and breath. We know sleep is essential to health, and sleep is the first thing we do when we are sick, but we still do not know why sleep is so important. These and many other questions about sleep and circadian processes is what the CSCN is trying to answer.

Our mission is to develop and support programs of excellence in sleep and circadian research and education throughout the University of Pennsylvania. To achieve this, we promote leadership, foster collaboration, and commit core resources to create opportunities for faculty and students.

Center Goals:
-- Maintain a dynamic infrastructure and pipeline of new outstanding investigators in this still emerging discipline. To facilitate this, the Center has administered two T32 grants and a K12 award to train graduate students and postdoctoral fellows.
-- Create a community of scholars and state of the art didactics in sleep and circadian rhythm. To facilitate this, the Center hosts many seminar series as well as an annual research retreat.
-- Translate basic science findings to clinical sleep medicine. To facilitate this, the Center is involved in Personalized Medicine and comparative effectiveness research.



Center for Statistics in Big Data

Type: Center

Summary:

Center for Statistics in Big Data (CSBD) focuses on significantly advancing the state of the art in statistical inferential and computational methods for transforming large, heterogeneous, high-dimensional big data sources into predictive models for biomedicine and precision medicine.

Big data appear in all aspects of modern biomedical research. Human genetics/genomics research is increasingly characterized by high-throughput assays that can measure millions of biologic states and/or processes on any given patient sample. Human microbiome research is moving from simple associations to more mechanistic understanding of host-microbe interactions and microbiome-regulated biological processes. New mobile and wearable devices and neuroimaging technologies provide detailed predictable longitudinal phenotypes. These technologies and the resulting big data hold tremendous promise for identifying specific genomic disruptions that lead to disease and tailoring treatments based on a patient’s particular cause of disease. As a result, genomic information and deep phenotyping are expected to proliferate both in research and clinical applications. However, the data generated by these assays are extremely complex and the datasets produced are big and heterogeneous. Sophisticated computational and statistical inferential methods are required to advance our knowledge of disease biology as well as to identify important, treatment-relevant features of individual patient genomes and metagenomes. Big data in health sciences raise major statistical inferential challenges, including assessment of sampling biases, inference about tails, reproducibility of results.

The goal of CSBD is to develop novel statistical inference methods for big data in health sciences and to apply these methods through close collaborations with investigators at Penn.



Center for Studies of Addiction

Type: Center

Summary:

Mission
Research:
The primary mission of the CSA is to continue to advance the cutting edge of knowledge on the nature of addiction and the best ways to relieve this terrible illness. Our research is translational in two directions. We carry knowledge from the preclinical laboratory to formal clinical trials in a university setting. We also translate knowledge learned from clinical trials to the average practitioner in the community. Thus the medications and behavioral treatments discovered in our research can have an impact on the care received by patients all over the world.

Education:
Developing and maintaining educational programs that teach the causes of addiction and the effective methods used to assess and treat the illness is another key component of our Center’s mission. The design and content of our educational programs strongly reflect the field’s significant research findings, much of which came from studies conducted at the Center. Included in these programs is the University’s full course on addiction, now required for all Penn medical students. Currently, it is the only medical school course of its kind in the United States. We also conduct training of psychiatric residents as well as residents in medicine and primary care. We have an NIH postdoctoral research training program for clinicians desiring board certification in Addiction Psychiatry and for PhDs and MDs desiring a research career in this field.

Patient Care:
Essentially, the same research findings that have influenced the design of our educational programs have provided the framework for our Patient Care delivery. The methods we use to diagnose and understand the severity of the illness as well as the interventions for treating it are all part of evidenced-based protocols. Individuals seeking treatment for substance-related addictions may receive care through one of the following options:
1) referral to one of the Center’s clinical trials to learn the details of the study and to determine eligibility for enrollment,
2) referral to the fee-based, private practice treatment program located at the O’Brien Center, or
3) the Center can help the individual arrange a self-referral to one of the local community-based treatment programs.



Center for Study and Treatment of Castleman and Inflammatory Lymphadenopathies

Type: Center

Summary:

The CSTL’s mission is to conduct groundbreaking translational research on Castleman Disease and related inflammatory lymphadenopathies to discover novel diagnostic biomarkers and therapeutics, identify optimal treatment approaches, and provide world-class patient care.



Center for Sub-Cellular Genomics

Type: Center

Summary:

A cell is a highly complex system with distributed molecular physiologies in structured sub-cellular compartments whose interplay with the nuclear genome determine the functional characteristics of the cell. A classic example of distributed genomic processes is found in neurons. Learning and memory requires modulation of individual synapses through RNA localization, localized translation, and localized metabolites such as those from dendritic mitochondria. Dendrites of neurons integrate distributed synaptic signals into both electrical and nuclear transcriptional response. Dysfunction of these distributed genomic functions in neurons can result in a broad spectrum of neuropsychiatric diseases such as bipolar and depressive disorders, autism, among others.

The Center for Sub-Cellular Genomics’ (CSG) mission is to develop new technologies to enable the dissection of complex genomic interactions within a single cell. New technologies include methods to target DNA and RNA sampling at sub-cellular resolution in live cells; high-throughput isolation and microfluidics chemistry for sub-cellular fractions; sub-cellular resolution mass-spectrometry; and computational tools for analysis of sub-cellular genomics data.

The new technologies developed by CSG will enable the broader genomics community to associate sub-cellular processes to cell function and dysfunction. These technologies will be utilized in the center to generate a comprehensive atlas of genomic signatures of sub-cellular compartments in the mammalian neuron system. The technologies and neuron-focused data obtained here will be relevant to neurodegenerative and neuropsychiatric diseases including Schizophrenia, Depression, Autism Spectrum Disorder, Traumatic Brain Injury, and Alzheimer’s.



Center for Systems and Computational Biology (Wistar)

Type: Center

Summary:

The Center for Systems and Computational Biology (CSCB) is an interdisciplinary unit that bridges the Institute's research programs, provides space and resources to encourage scientific interactions, and allows for more efficient use of centralized computational and other advanced technological platforms. The Center supports the development of new tools for integrating and analyzing data from genomics, proteomics, metabolomics, molecular modeling, and high-throughput screening, chemical biology, structural biology, and imaging, all of which involve large complex datasets that can challenge limits of available software tools and require high capacity, reliable data storage.

As part of its mission to support biomedical research at The Wistar Institute, the CSCB provides comprehensive services to assist with every aspect of scientific computing. The CSCB offers consultations for scientific computing and data management, primarily through the Bioinformatics Core Facility.

Members of the CSCB also collaborate on a variety of projects related to detecting, understanding and treating cancer, other diseases and clinical disorders, as well as projects on infectious disease and the development of new and more effective vaccines.



Center for Targeted Therapeutics and Translational Nanomedicine

Type: Center

Summary:

CT3N is a joint interdisciplinary venture between the Perelman School of Medicine (PSOM) and the School of Engineering and Applied Science (SEAS), with the mission to facilitate and accelerate translational research in targeted therapeutics and nanomedicines by bringing together the many leading laboratories active in these areas at the University of Pennsylvania, CHOP and surrounding academic institutions. Research areas being pursued by CT3N faculty include design of biomaterials and carriers for drug delivery, identification of molecular targets for cell-specific delivery, studies of targeting, binding, sub-cellular trafficking and metabolism of targeted drugs. These studies use modern strategies of nanotechnology, bioconjugation and recombinant fusion proteins, phage display libraries, cellular grafting, monoclonal antibodies, bioengineering, computational modeling, and diverse imaging modalities. The efficacy and safety of novel therapeutic approaches are evaluated in a wide range of cell culture and animal models.



Center for Therapeutic Effectiveness Research

Type: Center

Summary:

The Center for Therapeutic Effectiveness Research (CTER) is a Type 1 Center within the Center for Clinical Epidemiology and Biostatistics (CCEB).

The objective of CTER is to improve public health and patient-centered outcomes by enhancing the effectiveness of currently available therapies and improving care within health systems. This is accomplished through multidisciplinary research efforts targeted at several goals:
-- understanding the reasons for limited effectiveness
-- developing methods to improve effectiveness
-- rigorously testing these methods
-- determining strategies to implement these methods in practice

CTER directly addresses treatment, monitoring, and management of therapeutics and variations in subpopulation response to medications, with special focus on appropriate use, proper choice, dose, adherence, and monitoring.

In addition to conducting research, CTER funds pilot projects, provides opportunities for students and postdocs to learn new methods, and serves as a resource for effectiveness research efforts within and outside Penn.



Center for Translational Lung Biology

Type: Center

Summary:

The Center for Translational Lung Biology was designed to enhance lung and critical illness research by successfully integrating the clinical, translational, and basic science expertise in lung biology and critical illness, through its ability to provide the proper resources, organization, core facilities, and by supporting key recruitments. The Center is led by Dr. Jason Christie. The CTLB will work with the PCBC to provide key resources to SOM/University-wide researchers and trainees to vertically integrate basic and clinical science research through non-overlapping translational core functions focused on advanced lung diseases, lung transplantation, and critical illness syndromes. This will include a: 1) Biosample Acquisition and Clinical Data Management Core, 2) a Molecular Biology and Measurement Core, 3) a Lung Disease Modeling Core, 4) a vibrant seminar series including extramural speakers, partnered with other centers, and 5) outreach, with a focus on interacting closely with existing Departments, Centers, and Institutes to support lung disease research, especially in immunology (IFI), environmental lung diseases (CEET), epidemiology (CCEB), pediatric and neonatal lung disease (CHOP), Orphan Diseases, pulmonary vascular disease (CVI), lung transplantation (Dept. of Surgery), experimental therapies (ITMAT), and lung cancer (ACC).



Center for Weight and Eating Disorders

Type: Center

Summary:

Our Philosophy
Our philosophy is simple and straightforward. Overweight persons should be treated professionally and compassionately.
We know that not all overweight people are the same. Weight problems may result from a variety of factors, including genetics, a slow metabolism, illness, eating or exercise habits, and emotional distress.
We also realize that many overweight persons suffer form serious medical conditions, such as diabetes, high blood pressure, high cholesterol, sleep apnea and joint problems. Thus, we make special efforts to customize our programs to meet an individual's specific needs.
We assess the causes of the weight problem, determine its medical and psychological consequences, and then plan a program accordingly.



Center for the Treatment and Study of Anxiety

Type: Center

Summary:

The Center for the Treatment and Study of Anxiety (CTSA) is an internationally renowned research and clinical facility that offers state-of-the-art treatment programs specifically designed for Posttraumatic Stress Disorder (PTSD), Obsessive-Compulsive Disorder (OCD), Social Anxiety (SAD), Panic Disorder (PD), Agoraphobia, Generalized Anxiety Disorder (GAD), and Specific Phobias.

Unlike many clinical and research programs, which specialize either in adults or children, the Center’s unique strength is in providing clinical services across the developmental lifespan: we provide treatment to children, adolescents, and adults. Our treatments are tailored to each age group and are sensitive to developmental aspects of our patients.

The Center was founded in 1979 by Edna B. Foa, Ph.D., a world leader in anxiety disorders research, who is the Director of the Center. The Center for the Treatment and Study of Anxiety is a division of the University's Department of Psychiatry, and is located on the campus of the University of Pennsylvania in the city of Philadelphia, Pennsylvania.



Center of Excellence in Environmental Toxicology

Type: Center

Summary:

The mission of the CEET is to determine the mechanistic links between environmental exposures and diseases of environmental etiology. Understanding these processes can lead to early diagnosis, and prevention strategies. The overall goal is to improve environmental health and medicine in our urban region. Many of the solutions to the problems in this region will be translatable to other urban regions both nationally and globally.



Center on the Continuum of Care in the Addictions

Type: Center

Summary:

In the addictions, the term "continuum of care" refers to an approach to treatment in which patients are initially placed in the type and intensity of care that is appropriate, given the current severity of their substance use disorder and co-occurring problems. As their condition subsequently improves or deteriorates, patients are then either "stepped down" or "stepped up" to lower or higher levels of care, as needed.

The Center on the Continuum of Care in the Addictions was established in 2005 to further the development and evaluation of adaptive approaches to the delivery of treatment across the continuum of care. This new Center represents a collaboration between the Department of Psychiatry at the University of Pennsylvania, the Philadelphia Veterans Affairs Medical Center, and the Treatment Research Institute (TRI), in order to take advantage of complementary strengths in these groups.



Centers for Medicare & Medicaid Services

Type: Government Agency



Charles O'Brien Center for Addiction Treatment

Type: Center

Summary:

The Center
The Charles O'Brien Center for Addiction Treatment at the University of Pennsylvania Health System offers state-of-the-art addiction treatment provided by nationally renowned experts in the field. Our goal is to provide the highest possible quality of addiction treatment while helping you to regain control of your life.

Treatment Philosophy
We believe that treatment begins with a comprehensive evaluation in a supportive environment that includes an assessment of medical and psychiatric complications, difficulties in various realms of functioning, and readiness for change.

Our compassionate team believes in treating a person, not merely an addiction, and we strive to understand unique life circumstances, personal preferences, and character strengths to tailor an individualized treatment plan.

Since addiction is a biological disorder, we often prescribe medications to reduce cravings, block the rewarding effects of drugs and alcohol, and normalize brain function. Our approach fully integrates the psychological and biological interventions that are most likely to lead to sustained recovery in an outpatient setting.



Chemosensory Receptor Signaling Core (Monell)

Type: Core Laboratory

Summary:

This Research Core will provide training, advice and research support in molecular biological techniques used to analyze gene expression in cell culture and manipulate the genomes of rodent model organisms. The Core will centralize labor-intensive construct generation common to multiple users and provide users with technical expertise in molecular biological manipulations both in vitro and in vivo. The Core facility has all equipment, reagents, and expertise needed to carry out the following manipulations of RNA, DNA, and protein: RNA isolation, cDNA production, antisense RNA amplification, cloning, subcloning, recombineering, gel electrophoresis, transfection and tissue culture.



Chodosh Laboratory

Type: Laboratory

Summary:

The Chodosh laboratory uses genetically engineered mouse models to study the genes and mechanisms that cause breast cancer and that regulate normal mammary gland development. The relationship between mammary development and breast cancer susceptibility is illustrated by the observation that women who have their first child early in life have a significantly lower lifetime risk of developing breast cancer.

Understanding the molecular biology of breast cancer susceptibility requires a thorough understanding of the normal developmental biology of the mammary gland, the mechanisms by which breast cancers arise, and the role played by key regulatory molecules in each of these processes. Current experimental approaches towards these goals in the Chodosh laboratory include:

1. creating genetically engineered mouse models in which specific oncogenic pathways can be inducibly activated or repressed;

2. using INDUCIBLE ANIMAL MODELS to analyze the effect of developmental events on the mammary gland's response to a defined oncogenic stimulus;

3. using INDUCIBLE ANIMAL MODELS to dissect the process of carcinogenesis;

4. defining the molecular and cellular changes that occur in the mammary glands of mice, rats, and humans during STAGES OF DEVELOPMENT THAT INFLUENCE BREAST CANCER RISK;

5. using GENOMIC AND COMPUTATIONAL APPROACHES to investigate genetic programs in mammary development and carcinogenesis; and

6. studying the FUNCTION OF THREE NOVEL SERINE/THREONINE KINASES IN MAMMARY DEVELOPMENT AND CARCINOGENESIS. These approaches employ a variety of molecular, cellular, animal, human, and in silico model systems to study the function of key regulatory molecules in mammary gland biology.



Chronobiology and Sleep Institute

Type: Institute

Summary:

Humans and most animals display daily cycles of sleep and wake. The timing of these cycles is driven by endogenous circadian (~24 hour) clocks, which facilitate adaptation to our cyclic environment and confer daily rhythms not only on sleep but also on virtually all other physiological systems. Clocks in humans ensure that sleep occurs at night, body temperature is highest in the evening and cortisol peaks following morning awakening. In this manner, clocks separate different processes in time and optimize them to promote fitness. Health and fitness also depend upon sleep, not just the timing controlled by the circadian clock, but also the amount and quality of sleep, which are maintained at steady levels by other mechanisms. Disrupted rhythms and/or inadequate sleep, both of which are prevalent in modern society as a result of shift-work, travel across time zones (jetlag), and mistimed sleep or eating, have deleterious consequences for health. Even inadequate exposure to light during the day and dark at night, also common features of our electronically-driven lives, can dampen rhythms and affect sleep. Not surprisingly, given the broad impact of circadian rhythms and sleep on organismal function, disruptions in these have been associated with a wide range of diseases.

The Chronobiology and Sleep Institute (CSI) was created in 2019 in recognition of the biomedical relevance and cross-disciplinary nature of circadian rhythms and sleep. The overall goal is to strengthen our understanding of how biological timing and sleep impact physiology and behavior, and to stimulate the translation of laboratory findings to clinical implementation. The CSI bridges the basic and clinical sciences by bringing together researchers across these areas, promotes educational activities, and seeks to increase awareness of the health relevance of daily rhythms and sleep. Our participating faculty members are leaders in their fields, and their collective research interests encompass a vast spectrum of biomedical science, from neurobiology to metabolism to cardiovascular disease and cancer.



Clinical Cell and Vaccine Production Facility (Penn)

Type: Core Laboratory

Summary:

The Clinical Cell and Vaccine Production Facility (CVPF) renders bench-to-bedside translational medicine a reality. Equipped with state of the art facilities, the CVPF manufactures cell and gene biotherapeutics and is accredited by the Foundation for the Accreditation of Cellular Therapy (FACT). Further, the CVPF is the only GMP (good manufacturing practices) compliant facility on campus and functions as an NCI approved Abramson Cancer Center (ACC) Shared Resource. As an ACC Shared Resource and Path and BioResources core facility, the CVPF supports numerous investigational new drug (IND) protocols. Current protocols target a variety of disease indications (primarily HIV, adult and pediatric cancers, and stroke); many more trials are in development and, once approved, will further expand the scope of diseases targeted for cell and gene therapy. For more information on current trials, explore our “Clinical Trials” page.



Clinical Core

Type: Core Laboratory

Summary:

The mission of the Penn CFAR Clinical Core is to promote and support patient-oriented research related to HIV infection and its co-morbidities.

The Clinical Core maintains longitudinal Adult/Adolescent and Pediatric Databases that include information on over 3,100 HIV-infected men, women, adolescents, and children receiving care in University of Pennsylvania affiliated hospitals. These databases contain patient demographics, clinical and therapeutic information, and behavioral and psychosocial data. Data on adults can be linked to the University of Pennsylvania Data Store, which contains diagnoses, medication lists, laboratory and radiology test results, procedures, and healthcare utilization data from all inpatient and outpatient encounters within the University of Pennsylvania Health System. The CFAR Databases can be linked to Adult/Adolescent and Pediatric Repositories that contain stored plasma, serum and cells. Additional types of patient specimens can be collected by request.

These resources are available to promote interdisciplinary and translational HIV research across the University of Pennsylvania, Children's Hospital of Philadelphia, and Wistar Institute campus, and also are available to non-Penn CFAR members.



Clinical Research Computing Unit (Penn)

Type: Core Laboratory

Summary:

The CRCU serves as a "Core Research Facility" within the University to allow researchers and investigators access to its services across a wide range of research programs and medical disciplines. These core services allow the CRCU to participate in various research programs within the University, as well as with external research-related entities. The CRCU provides a complete set of services to facilitate the collection, storage and management of clinical research data for any size research study conducted by University investigators and their collaborators. Whether the CRCU performs the myriad duties of a Data Coordinating Center for multi-center research networks or creates a simple database to organize cohort data, each project receives the right amount of specialized expertise and attention to ensure successful completion with accurate and reliable research data. The CRCU has extensive experience providing design, development and project and technology support services to the entire Penn Medicine clinical and translational research enterprise.



Clinical Research Informatics Core

Type: Core Laboratory

Summary:

The Clinical Research Informatics Core (CIC) of the Institute for Biomedical Informatics (IBI) provides an array of computational services to support the utilization of clinical data for biomedical research at the University of Pennsylvania.



Clinical Research Support Office (CHOP)

Type: Core Laboratory

Summary:

The Clinical Research Support Office (CRSO) provides high quality services to assist investigators and study teams in the start-up, execution, and completion of clinical research studies.
The CRSO offers comprehensive support in the following areas:
Research Staffing
Clinical Trial Financial Management
CHOP Research Navigator
Clinical Trial Support
Contracting
Recruitment Enhancement
IND/IDE Support

Contact: Jennifer Goldfarb, Senior Director, 267-426-7909

Clinical Trial Support:
-- Provides services related to the support of clinical trials, including the implementation, training, and support of OnCore, an enterprise Clinical Trial Management System (CTMS).

Contracting:
Negotiates the following types of contracting agreements:
-- Industry-funded human subjects research (both industry-initiated and investigator-initiated)
-- Subcontracts from industry-funded human subjects research
-- Master agreements and Letters of Intent to pursue industry-funded human subjects research
-- eIND and sIND expanded access agreements

Recruitment Enhancement
REC services include:
-- Recruitment plan consultation and development
-- Facilitate recruitment opportunities across CHOP and UPenn
-- Identification of potential participants through the Electronic Health Record (HER)
-- Paper and electronic invitations to potential participants
-- Study advertising to all CHOP employees

Research Staffing
Clinical research professional staff with diverse backgrounds, education, and experience are available to help clinical investigators and teams. Our staff are experienced with many types of clinical research studies.
Available full or part-time, temporary or long-term.
Some examples of support provided include:
-- Full study coordination activities
-- Study start up (IRB, CTRB, and eTrack submissions)
-- Preparation of regulatory documents and consent forms
-- Subject recruiting and consenting
-- Data entry and management
-- Study visit coordination
-- Safety reporting

Clinical Trial Financial Management
CTFM provides financial management throughout the lifecycle of a clinical research study and assists in the following areas:
-- Budget preparation and negotiation
-- Research subject registration and study visit financials
-- Research procedure charge review
-- Sponsor invoicing
-- Grant close outs

Investigation New Drug/Investigational Device Exemption (IND/IDE) Support
Provides regulatory and operational support for CHOP physician-initiated FDA regulated clinical trials.
Services include:
-- Guidance on whether a drug/device is exempt from IND/IDE designation
-- Protocol development and review
-- FDA regulatory strategy, submissions, and reporting requirements
-- Training, education, tools, and resources
-- Maintenance of institutional records of FDA submissions

CHOP Research Navigator
Serves as a liaison that connects research teams to available research resources at the institute.
Assist with:
-- Addressing inquiries
-- Listening to your concerns
-- for your ideas
-- Disseminating relevant information across the institute
-- Proposing opportunities for process improvement and education



Clinical Translational Core

Type: Core Laboratory

Summary:

The Clinical Translational Core (CTC) is of fundamental importance to the mission of the IDDRC as it will facilitate interdisciplinary and translational research. The CTC’s specific goals are to furnish investigators with a set of tools that support:
1) Recruitment of both controls and patients into clinical studies.
2) Tools and guidance for phenotypic characterization of study participants.
3) Cost- effective coordination of existing CHOP/UPenn clinical translational resources.
4) Assistance with IRB and other regulatory processes.



Clinical Vector Core (CHOP)

Type: Core Laboratory

Summary:

The Raymond G. Perelman Center for Cellular and Molecular Therapeutics at The Children's Hospital of Philadelphia has established a state-of-the-art cGMP clinical vector manufacturing suite for both adeno-associated viral vectors and Lenti viral vectors, help to realize the enormous promise of gene transfer therapy to address unmet medical needs.

The Core Facility utilizes a patented vector production technology and a highly efficient purification process that utilizes combined column and gradient centrifugation-based process steps. This system has manufactured clinical grade AAV vectors that have demonstrated excellent safety in several clinical studies.



Clinical and Translational Research Center

Type: Center

Summary:

The Clinical and Translational Research Center (CTRC) was formed with the receipt of the Clinical and Translational Science Award (CTSA), an NIH Roadmap initiative. The CTRC has child and adult specific components at the Children's Hospital of Philadelphia (CHOP) and University of Pennsylvania, respectively, as well as joint components. The CTRC merged the General Clinical Research Centers (GCRCs) at both institutions, and introduced new programs and services. The goal of the CTRC is to provide the resources, environment, operations, and training to support and promote high-quality clinical and translational research by qualified investigators.



Clinical/Cancer Imaging Core (Penn)

Type: Core Laboratory

Summary:

Established in 2010 as a joint effort between the Department of Radiology and the Abramson Cancer Center

Purpose: serves as a centralized resource to support and facilitate advanced imaging techniques within clinical trials.

Objectives:
--- provide high quality consistent image acquisition processes and image analysis for cancer clinical trials involving imaging endpoints
--- assist with protocol development, submission and activation of cancer clinical trials that involve imaging modalities
--- provide scientific consultation to clinical investigators on the most appropriate cancer imaging methods to meet scientific needs
--- direct investigators to the appropriate choice of both standard and advanced imaging methodologies in ACC clinical investigation



Community Engagement and Research Core (Penn)

Type: Core Laboratory

Summary:

Mission:
The purpose of the Community Engagement and Research Core in the Penn CTSA is to facilitate community-based research and community engagement, especially community-based participatory research, and enhance the translation of research and technological developments to key public health and community stakeholders.

Goals:
1. Foster community-based participatory research projects through developing training programs and integrating lectures into existing academic programs
2. Determine community health needs and priorities
3. Promote community-based research within the area of health disparities through seminar series
4. Continue the involvement in community outreach and education events to engage the community
5. Fund the conduct of CEAR Core pilot studies
6. Facilitate the use of academic-community partnerships to aid in the recruitment of subjects



Community Outreach Using Health System Informatics Core (Penn)

Type: Core Laboratory

Summary:

Mission:
To promote the use of Penn Health System information resources in support of clinical research.

Goals:
1. Facilitate collection of data from operational information systems in the Penn health system
2. Facilitate the creation of interventions in operational information systems in the Penn health system
3. Foster the use of information systems such as electronic medical record and computerized order entry in the conduct of clinical trials
4. Enable the use of Electronic Health Records, Computerized Order Entry Systems, Health System Administrative Databases, laboratory and other ancillary test information systems to provide primary data for epidemiological and health services research studies
5. Educate ITMAT investigators on the types and quality of data and limitations of its use for health system information systems



Comparative Pathology Core

Type: Core Laboratory

Summary:

The Comparative Pathology Core (CPC), an Abramson Cancer Center shared resource, provides expert pathological characterization and validation of mouse and other animal models used in biomedical research by offering the expertise of board-certified veterinary pathologists and access to state-of-the-art histology, immunohistochemistry, and digital pathology services.



Comprehensive Bone Marrow Failure Center (CHOP)

Type: Center

Summary:

The Comprehensive Bone Marrow Failure Center (CBMFC) at Children’s Hospital of Philadelphia serves patients with inherited or acquired bone marrow failure (BMF). It provides comprehensive consultation and treatment across a range of BMF disorders. The Center brings together CHOP experts from all relevant pediatric subspecialties and is closely affiliated with colleagues at the Hospital of the University of Pennsylvania caring for adult patients with BMF. The team has extensive experience in caring for patients with aplastic anemia (acquired and familial), Diamond-Blackfan anemia, dyskeratosis congenital, Fanconi anemia, myelodysplastic syndrome, paroxysmal nocturnal hemoglobinuria, severe congenital neutropenia, Shwachman Diamond syndrome, and other inherited BMF syndromes.



Computational Biology and Informatics Laboratory

Type: Laboratory

Summary:

The goal of our work is to help make sense of the enormous amount of biomedical data generated by high-throughput genomic approaches and synthesize them into something more than the sum of the parts. To that end, we are developing tools that enable researchers to mine and integrate data from a variety of different sources and types of experiments. In particular we are applying these approaches to expand our understanding in the areas of diabetes and infectious disease. We model data with networks and reality with ontologies especially the Ontology for Biomedical Investigations (OBI) for the latter.



Computational Genetics Laboratory

Type: Laboratory

Summary:

Our research goal is to develop, evaluate and apply novel computational methods and open-source software for identifying genetic and genomic biomarkers associated with human health and disease. Our focus is on methods that embrace, rather than ignore, the complexity of the genotype-to-phenotype mapping relationship due to phenomena such as epistasis and plastic reaction norms. Areas of interest include artificial intelligence, bioinformatics, biomedical informatics, complex systems, computational biology, genetic epidemiology, genomics, human genetics, machine learning, and visual analytics.

Our education goal is to provide interdisciplinary training and research experience to undergraduate, graduate, and postgraduate students. Our philosophy is that biomedical researchers of the future need to speak multiple languages to effectively collaborate with diverse teams of people focused on solving the hardest problems in health and healthcare.



Cryo-EM Training and Screening Lab

Type: Laboratory

Summary:

The Cryo-EM Screening and Training Facility is the part of the Electron Microscopy Resource Laboratory that provides training and access to state-of the art cryo electron microscopy (cryo-EM) and cryo electron tomography (cryo-ET) for structural investigation of macromolecules and cells. The facility houses two FEI microscopes (T12 and TF20), sample preparation instruments such as Vitrobot as well as two Leica cryo plungers, and all the accessories needed to perform sample screening using negative stain imaging and cryo-EM. The facility is available to Penn research groups and external academic research groups in the greater Philadelphia area.

The goal of The Cryo-EM Screening and Training Facility is to train users to self-sufficiency and proficiency in microscope operation and sample preparation with the ultimate goal of creating independent users who require minimal assistance from staff.



Cyclotron Facility (Penn)

Type: Core Laboratory

Summary:

One of the cyclotrons is a Japan Steel Works (JSW) BC3015 30 MeV machine, capable of accelerating protons, deuterons, 3He, and 4He. Beam currents of 10-20 mA are typical with a maximum current capability of 60 mA. In 2009, an IBA 18/9 MeV Cyclone cyclotron was added into an expanded vault adjacent to the existing JSW cyclotron. The second cyclotron provides for higher beam currents than are available on the JSW cyclotron. As a result, the 18FF- production yield increases from 2 Ci to 12 Ci and; 11CCO2 yield increases from 3 Ci to 4 Ci, thereby increasing yields of research radiotracers. While the JSW can only irradiate one target at a time, the IBA is capable of irradiating two targets simultaneously and has been the main workhorse cyclotron. In addition to 18FF- production, this cyclotron is also used for 18FF2 bombardment for electrophilic radiosyntheses. Despite its older design and lower yields, the JSW has an advantage of a higher particle energy and capability to produce alpha particles; this is a rare and valuable asset and enables our facility to produce novel radionuclides for biomedical research. In particular, the JSW currently is used to produce At-211, a radionuclide that has potential in targeted systemic radiotherapy.

The facility is divided into two sections: a clinical production laboratory where the radiopharmaceuticals used in routine diagnostic scans and clinical studies are produced, and a multiuse research area in which new radiotracers are developed for cell studies, animal studies and other research uses."

"The clinical production laboratory is operated under cGMP regulations.



DNA Sequencing Facility

Type: Laboratory

Summary:

The DNA Sequencing Facility provides reliable, long read, automated Sanger sequencing with fast turnaround; microsatellite-based genotyping and fragment analysis; plasmid and BAC DNA preparation and purification; and related molecular biological services including PCR, cloning, sub-cloning, site-directed mutagenesis, and preparation of targeting vectors for gene targeting in mice. It also provides services and support for analysis and interpretation of sequence data as well as the design of approaches to complex sequencing projects.
For the last four years the facility has been providing Roche 454 sequencing service that includes library preparation, emulsion PCR and pyrosequencing for both genomic DNA and amplicons. Data analysis is provided in each project depending on the investigator’s specific need.
Ion Torrent's Personal genome machine (PGM) is the latest addition at the facility. Known for scalability, simplicity and speed, this inexpensive technology is advancing fast to achieve new goals in terms of throughput and read length. The maximum read length and the throughput available at this point is 200 b and 1 Gb respectively. The applications are similar to those of long-read 454 sequencer and includes targeted resequencing of barcoded samples, sequencing of captured library, sequencing of bacterial and viral genomes, sequencing of metagenomic samples, RNA-seq specially small RNA sequencing and validation of sequence data obtained on other platforms. The sequencer comes with Torrent Suite, the Torrent server analysis pipeline that is the primary software used to process raw data acquired by PGM sequencer to produce sequence read files. The base calls are in both SFF and FASTQ file formats for easy downstream analysis with third party analysis tools. The Torrent suite performs filtering, trimming, mapping with the generation of a Variant Caller report. This long read sequencer is going to bring down the cost of new generation sequencing significantly.
The range of services mentioned above along with the expertise of the facility personnel enables this core to provide full support for investigators at Penn, who can easily obtain fast, reliable data on genes of interest, whether they are doing targeted or whole genome tumor genome sequencing, deep resequencing, screening clones for sequences of interest, establishing the identity of new clones, or searching for mutations in specific genes.



De La Fuente Laboratory

Type: Laboratory

Summary:

Research in my Laboratory is focused on:

I.) Regulation of Large-Scale Chromatin Structure and Epigenetic Control of Gene Expression during Oogenesis

Chromatin configuration in the nucleus or germinal vesicle (GV) of mammalian oocytes undergoes dynamic epigenetic modifications during oocyte growth. A crucial developmental transition at the culmination of oogenesis, large-scale chromatin remodeling in the GV is essential to confer the female gamete with meiotic and developmental potential. Using several models for the experimental manipulation of chromatin structure and function in combination with cell and molecular biology approaches our current work seeks to determine the cellular pathways and factors that are involved in remodeling chromatin in the mammalian oocyte genome.


II). Role of Chromatin Modifications during Meiosis

Centromeric heterochromatin formation is essential for chromosome architecture, transcriptional silencing and chromosome segregation.
However, little is known concerning the epigenetic control of heterochromatin formation in the mammalian germ line. Using RNA interference (RNAi) we have begun to explore the role of ATRX, (a heterochromatin binding protein with chromatin remodeling activity) during meiosis. ATRX is present at centromeric domains in the germinal vesicle of mouse oocytes and becomes exclusively associated with centromeres of chromosomes at metaphase I or metaphase II of meiosis, where it is required to mediate chromosome-microtubule interactions in the female gamete. Moreover, we currently study the role of the lymphocyte-specific helicase (LSH) on meiotic chromosome synapsis, heterochromatin formation and maintenance of genomic stability in the female germ line.



Department of Animal Biology, University of Pennsylvania

Type: Department



Department of Basic and Translational Sciences

Type: Academic Department

Summary:

The Department of Basic and Translational Sciences brings together the School’s basic sciences faculty in the areas of anatomy and cell biology, biochemistry, microbiology, and pathology into one unified department. Spanning common research between lab groups, interdisciplinary collaboration creates a synergy to leverage the collective potential of faculty, testing the boundaries of basic science, translational medicine, and clinical sciences to support and advance research across disciplines.



Department of Biochemistry and Biophysics, University of Pennsylvania

Type: Department



Department of Biology, University of Pennsylvania

Type: Department



Department of Biomedical Sciences, University of Pennsylvania School of Veterinary Medicine

Type: Department



Department of Biomedical and Health Informatics

Type: Center

Summary:

The Department of Biomedical and Health Informatics (DBHi) explores how technology can impact both research and patient care. DBHi's talented team of data scientists, programmers, and bioinformatics scientists combine both technological and scientific expertise to transform research and clinical data into innovative solutions that directly impact patient outcomes. Additionally, DBHi provides an academic home for all research informatics activities, including the development and deployment of intellectual, technical, and educational resources in biomedical computing.



Department of Biostatistics, Epidemiology and Informatics, University of Pennsylvania

Type: Department

Summary:

The DBEI distinctively brings together expertise in biostatistics, epidemiology and informatics, to advance population-health science.
To understand health and disease today, we need new thinking and novel science —the kind we create when scientific disciplines work together. That is why this department has put forward a bold vision in population-health science: a single academic home for biostatistics, epidemiology and informatics. We are one of the nation’s only school-of-medicine departments that span such breadth. And we are the largest basic-science department within the highly rated Perelman School of Medicine (PSOM).



Department of Cancer Biology, University of Pennsylvania

Type: Department

Summary:

While deaths from cardiovascular disease have declined dramatically over the past 50 years, deaths from cancer have not. As a result, cancer will soon become the leading cause of death in the United States. The Department of Cancer Biology at the Perelman School of Medicine of the University of Pennsylvania was founded in 2000 in response to the growing focus on understanding this deadly disease and reducing its impact on families and communities throughout the United States.

The Cancer Biology Department provides a dynamic, collaborative and highly interactive scientific environment for the conduct of research and laboratory training for more than 70 graduate students, postdoctoral fellows and faculty. The Department occupies beautiful, state-of-the-art research facilities in BRB II/III in close proximity to the Abramson Family Cancer Research Institute and the Division of Hematology-Oncology.

Beyond its research and training mission, the Department is committed to undergraduate, graduate, and medical student education, to facilitating the research and professional development of its faculty members, and to mentoring junior faculty and trainees to promote career advancement.



Department of Cell and Developmental Biology, University of Pennsylvania

Type: Department



Department of Chemistry, University of Pennsylvania

Type: Department



Department of Dermatology, University of Pennsylvania Perelman School of Medicine

Type: Department



Department of Emergency Medicine

Type: Department

Summary:

Department of Emergency Medicine are dedicated to delivering exceptional clinical care, training the future leaders of emergency medicine, and creating new knowledge through innovative research.

Department of Emergency Medicine physicians, nurses, residents, and staff work hard every day to keep Penn EM at the forefront of emergency care. They strive to continuously improve care quality, efficiency, and patient experience. Penn Medicine consistently ranks among the top medical centers in the nation, and the Department enjoys high quality consultation services and interactions with top programs in orthopedics, trauma surgery, oncology, neurology and other specialty areas.

Department of Emergency Medicine support a highly-competitive four year EM residency program, led by a talented team of physician educators who serve to educate the national EM leaders of the future. They offer advanced fellowship training in EM/critical care, toxicology, and ultrasound, as well as other tailored opportunities.

The Department of Emergency Medicine strive to be leaders in generating new approaches to improving patient outcomes. They are proud of the deeply collaborative and impactful work led by the physician-scientists in our Department. Our broad research portfolio spans cellular biology, translational resuscitation science, health policy and economics, and social media.



Department of Endodontics

Type: Academic Department

Summary:

The University of Pennsylvania School of Dental Medicine has the unique honor of being the birthplace of modern endodontics with Dr. Louis Grossman, the father of modern endodontics, having established the Penn Dental Medicine endodontic program.

The highly respected research environment at Penn Dental Medicine and throughout the University of Pennsylvania provides a valuable opportunity for students applying to residency programs to combine their specialty training with advanced research and academic opportunities.

Students in the residency program are exposed to the many facets of modern clinical endodontics with an emphasis on the utilization of the microscope in all types of advanced endodontic procedures, including emergency treatment, complex conservative treatment, microsurgery, pediatric endodontics, and the treatment of traumatic injuries to teeth.

In addition to the core basic science courses required for all postgraduate students, the endodontic department arranges further basic science courses related to the specialty. Clinical seminars, planned reading seminars, and an extensive guest lecture series are also part of the educational experience.



Department of Family Medicine and Community Health, University of Pennsylvania

Type: Academic Department



Department of Genetics, University of Pennsylvania

Type: Department



Department of Materials Science and Engineering, University of Pennsylvania

Type: Department



Department of Mechanical Engineering and Applied Mechanics, University of Pennsylvania

Type: Department



Department of Medical Ethics and Health Policy

Type: Department

Summary:

The Department of Medical Ethics & Health Policy is based in the Perelman School of Medicine at the University of Pennsylvania. Under the direction of the department chair, Ezekiel Emanuel, MD, PhD, the Department stands as one of the premier institutions of research and education in medical ethics and health policy in the world. The Department's distinguished faculty produce and disseminate scholarship and lead three master’s degree programs: the Master of Bioethics, the Master of Science in Medical Ethics, and the online Master of Health Care Innovation. In addition to their own projects, faculty members supervise research being carried out by undergraduates, graduate students, medical students, doctoral students and post-doctoral fellows. The Department’s presence in the world of biomedical ethics education is ever-growing.



Department of Medicine

Type: Department



Department of Medicine, University of Pennsylvania

Type: Department



Department of Microbiology, University of Pennsylvania

Type: Department



Department of Obstetrics and Gynecology, University of Pennsylvania

Type: Department



Department of Ophthalmology, University of Pennsylvania

Type: Department



Department of Oral Medicine

Type: Academic Department

Summary:

The Department of Oral Medicine at The University of Pennsylvania aims to fulfill the missions of education, scholarship, and clinical / outreach services while achieving eminence globally. Penn Oral Medicine has trained and educated individuals who have achieved both clinical and academic success in the specialty. The program has been in existence for over sixty years and several oral medicine pioneers at Penn were influential in its development, including Dr. Lester Burket, Dr. Vernon J. Brightman, Dr. S. Gary Cohen, Dr. Irwin Ship, Dr. Malcolm Lynch and Dr. Martin S. Greenberg. The department mission to educate pre-doctoral and graduate dental students in the highest quality clinical and research environment is congruent with the guiding principles of Penn Dental Medicine and the Penn Compact 2020: Inclusion, Innovation, and Impact. The standing faculty is composed of internationally recognized experts in their respective disciplines. They are positioned within the department to maintain their expertise while developing their knowledge and educating the next generation of students, residents and fellows while serving the needs of the populations they serve.



Department of Oral and Maxillofacial Surgery / Pharmacology

Type: Academic Department

Summary:

As a leader in predoctoral and postgraduate oral & maxillofacial surgery/pharmacology education, the University of Pennsylvania School of Dental Medicine’s Department of Oral & Maxillofacial Surgery/Pharmacology has been spearheading the path of clinical excellence built on a strong foundation. We developed a competency-based instructional model based on the didactic and clinical training and experiences to predoctoral students. Other lectures and seminars are given in other courses and during the clinical rotations to complement the didactic training in oral and maxillofacial surgery.

Our postgraduate oral & maxillofacial surgery/pharmacology program has been designed as a six-year integrated Oral and Maxillofacial Surgery/MD Program which includes the awarding of a medical degree from the University of Pennsylvania School of Medicine, a two-year certificate of General Surgery and a certificate in Oral and Maxillofacial Surgery (OMFS).



Department of Orthodontics

Type: Academic Department

Summary:

Welcome to the Department of Orthodontics.  Since its establishment in 1916, the University of Pennsylvania Orthodontic Department has been considered to be home of one of the world’s premier orthodontic programs.  Penn Orthodontics has been a leader in clinical excellence due to its strong yet diverse faculty, a highly collaborative relationship with the School of Dental Medicine, and its location within an Ivy League university and a city which is world-renowned for health care education.  Combined exposure to contemporary clinical technology with  fundamental concepts is one of higher education’s greatest challenges.



Department of Orthopaedic Surgery, University of Pennsylvania Perelman School of Medicine

Type: Department



Department of Pathobiology, University of Pennsylvania School of Veterinary Medicine

Type: Department

Summary:

The Department of Pathobiology is dedicated to teaching and research in pathology, infectious diseases and immunology, and laboratory animal medicine. Our mission statement is “To understand the nature of disease and its impact on humans and animals.”

Located on both the Philadelphia and New Bolton Center campuses, it has an outstanding reputation for fundamental research, and provides crucial clinical services for the School and the State. Furthermore, by offering the very best training for veterinary students, residents, graduate students and post-doctoral fellows, the Department is helping to mold the future leaders in veterinary medicine and in basic research.



Department of Pathology and Laboratory Medicine, University of Pennsylvania

Type: Department

Summary:

This young 21st century promises a revolution, already manifest, in diagnostics and therapeutics. As one of two hospital-based departments in the Perelman School of Medicine at the University of Pennsylvania with a primary focus on clinical diagnostics, the Department of Pathology and Laboratory Medicine will continually be called upon to help pave the way for Penn Medicine's full participation in this ongoing transformation.

Moreover, as the locus for infusional therapeutics, the Department also will be asked to embrace those next-generation therapeutics which involve the infusion of cells, proteins, and genes. These pivotal roles in patient care will be complemented by the Department's traditional, broad-based contributions to the education and research missions of the Perelman School of Medicine at the University of Pennsylvania.

Penn Medicine’s Department of Pathology and Laboratory Medicine is organized into clinical divisions of Anatomic Pathology, Neuropathology, Laboratory Medicine, Transfusion Medicine and Therapeutic Pathology, Hematopathology, Precision and Computational Diagnostics, Pediatric Pathology, and its basic science division, Experimental Pathology and Immunobiology.

Each clinical division contains a number of specialty laboratories and services, while the experimental pathology division is comprised of a range of basic and translational research laboratories.

The department's physicians and scientists have developed many recent diagnostic tests through the use of cellular, genetic, and molecular technology. Research areas of interests include bioinformatics, biomarker discovery, cancer biology, cardiovascular pathobiology, developmental, stem cell, and regenerative biology, diabetes, experimental therapeutics, gene therapy and vaccines, genetics, gene regulation and genetic-related diseases, fundamental immunology, hematology, HIV, microbiology and infectious diseases, metabolic regulation, neuropathology and neurodegenerative disorders, proteomics, and orphan diseases.

Combining the full gamut of possible activities found within academic pathology departments, the Department has solidified its national reputation as one of the leading, fully integrated academic departments of its kind. It has also positioned itself at the crossroads of the intellectual life at Penn, as the home to many of the School of Medicine’s centralized resource laboratories and with substantive ties to multiple centers, institutes, departments and other schools on campus.



Department of Pediatrics, University of Pennsylvania

Type: Department



Department of Periodontics

Type: Academic Department

Summary:

The Department of Periodontics is a leader in predoctoral and postgraduate periodontal education, spearheading a path of clinical excellence built on a strong foundation of evidence-based practice. Approved by the American Dental Association, the advanced education program in periodontics is designed to provide postdoctoral students with advanced training in the discipline of periodontics and implantology. Additionally, a four-year program in periodontal prosthesis and a four-year combined periodontics-orthodontics program are offered to selected candidates.

The Department also offers an international visiting scholars program, designed for international clinicians who practice or are planning to practice dentistry focused on periodontics and surgical and restorative implantology.

Research within the Department ranges from the areas of inflammation and diabetes as they relate to periodontal disease and the loss and repair of connective tissue and bone, to clinical studies on therapies for the treatment of periodontitis.



Department of Physical Medicine & Rehabilitation

Type: Academic Department

Summary:

Penn Physical Medicine and Rehabilitation (PM&R) provides comprehensive, multidisciplinary treatment for patients with musculoskeletal disorders, spinal cord injury, brain injury, neurological disorders, stroke, pelvic floor disorders, amputation, cancer and sports injuries at a variety of locations throughout the Philadelphia area. Our department is comprised of highly skilled, sub-specialty trained physicians and healthcare professionals that span multiple disciplines, creating an organized and seamless system of care. Our strong commitment to quality and outcomes provides patients with the most progressive treatments and medical technology available.



Department of Physiology, University of Pennsylvania

Type: Department

Summary:

Physiology is the study of how living systems function. Physiologists seek to describe biological processes in physical and chemical terms. Accordingly, physiologists can be trained in diverse backgrounds, which enable them to bring unique insights and technical approaches to study living systems from the sub-cellular level to the whole organism. For example, faculty in our Department have been trained in chemistry, medicine, zoology, physics, biochemistry, mathematics, biophysics, cell and developmental biology, neurobiology, and, believe it or not, physiology. Physiologists may be interested in the molecular function of individual molecules such as enzymes, membrane transporters, or molecular motors, or in how these molecules interact within a network to generate higher-level biological activities. Our Department has particular strengths in the molecular biophysics of membrane transport proteins and biological motors, as well as in the cell physiology and integrative biology of transport, motility, signaling and metabolism. We employ a wide range of experimental techniques in the fields of cell and molecular biology, chemistry, physics, engineering, genetics, genomics, and bioinformatics. It may not be an overstatement to suggest that Physiology enables insights from biophysics, biochemistry, molecular biology, cell biology, genetics, and pharmacology to be described in an integrated manner that can be applied to human medicine. Much of clinical medicine relies on understanding molecular, cellular and organ-system physiology.



Department of Psychiatry, University of Pennsylvania

Type: Department



Department of Radiology, University of Pennsylvania

Type: Department



Department of Surgery, University of Pennsylvania

Type: Department

Summary:

PENN SURGERY is dedicated to high quality patient care, education, basic science and clinical research. The surgical faculty is composed of a diverse group of general surgeons, subspecialists and researchers. Their clinical, educational, and scientific activities are devoted to providing the best possible patient care and the generation of new knowledge. Their pursuit of this goal is reflected in their strong commitment to student teaching and housestaff training in the operating room, clinic, and research laboratory, and in their contributions to national and international scientific meetings and journals.



Department of Systems Pharmacology and Translational Therapeutics, University of Pennsylvania

Type: Department

Summary:

Systems Pharmacology and Translational Therapeutics involves the discovery of new drugs, the investigation of how drugs work and the use of drugs to probe mechanisms of disease. But pharmacology also involves the elucidation and manipulation of macromolecular structures, the analysis of regulatory mechanisms in cell biology and development, and the translation of this information into clinical research. Emerging concepts in drug development also involve in vivo targeting or ex vivo engineering of Immune Cells to "retrain" the human immune system to achieve control of disease and more optimal health. Thus, the science of pharmacology spans the most fundamental aspects of basic research, through transgenic animal models, to clinical investigation.



Development Core

Type: Core Laboratory

Summary:

The primary goal of the Developmental Core is to promote AIDS- and HIV-related research at the University of Pennsylvania, The Children's Hospital of Philadelphia, and The Wistar Institute by providing a source of funding for pilot projects. The Developmental Core supports short-term (one year) projects in emerging areas of HIV research, including new research related to the recruitment of new investigators, research by established investigators who are turning their attention to AIDS, and research by HIV/AIDS investigators who are undertaking studies that represent a significant departure from their previous work.



Diabetes Research Center

Type: Center

Summary:

The Penn Diabetes Research Center (DRC) participates in the nationwide inter-disciplinary program established over thirty-five years ago by the NIDDK to foster research and training in the areas of diabetes and related endocrine and metabolic disorders. The Penn DRC is located in the newly opened Translational Research Center, which is a component part of a single integrated building providing health services for patients, biomedical research laboratories, and education space. The Penn DRC serves over 110 diabetes-oriented investigators primarily from the Perelman School of Medicine, but also from other Schools within the University of Pennsylvania as well as additional Philadelphia institutions including Jefferson and Temple.



Division of Endocrinology, Diabetes and Metabolism, University of Pennsylvania

Type: Division

Summary:

Penn endocrinologists are internationally and nationally recognized for expert care in the diagnosis and treatment of endocrine disorders as well as research in endocrinology, diabetes and metabolism.

Penn endocrinologists treat people with endocrine disorders and are learning more about endocrine disorders through research to understand these diseases and provide improved treatments.



Division of Gastroenterology, University of Pennsylvania

Type: Division



Division of Geriatric Medicine, University of Pennsylvania

Type: Division



Division of Laboratory Animal Medicine

Type: Division

Summary:

The core mission within the Division of Laboratory Animal Medicine (LAM) in the Department of Pathobiology is divided into three specific activities:
1. Veterinary Clinical, Pathology, Diagnostic Services and Regulatory Support: Pathobiology faculty and staff within University Laboratory Animal Resources (ULAR) provide veterinary and diagnostic support to investigators throughout the University of Pennsylvania.
2. Training of Veterinary Students and Residents: Faculty and staff from our group teach veterinary students about laboratory animal biology, medicine, and diseases by providing didactic courses in the Veterinary School. Learn more about training for students and residents...
3. Biomedical/Clinical Research and Consulting for Investigators in Animal Modeling: Our faculty and clinical veterinarians consult and advise scientists in methods to improve their experimental models and may participate in collaborative research projects.
Major areas of research interest include pathogenesis of infectious disease, improvements in the anesthesia of rodents, large animals and amphibians, musculoskeletal physiology, rodent virology, improvements in research animal husbandry, veterinary care of immunodeficient small and large animals, novel cellular therapies for development of immunological tolerance and transplantation immunobiology.



Division of Translational Medicine and Human Genetics, University of Pennsylvania

Type: Division

Summary:

Welcome to the Division of Translational Medicine and Human Research. Our highly diverse team of researchers, clinicians, and educators draw on expertise from a number of specialties to advance knowledge of genetics and genomics, translate that knowledge to advances in diagnostics and clinical care, and train the next generation of experts.

Translational medicine is a term used to describe the "translation" of laboratory research findings into proof of concept in humans, ultimately leading to advances in the diagnosis, prediction, treatment, and possible prevention of disease. Human genetics encompasses the study of human genetic variation and its impact on health.

Penn Medicine is a leader in translational therapeutics, as well as the application of human genetics to clinical medicine. There is tremendous opportunity to harness the knowledge that can be gained from the human genome to optimize long-term health and provide information that will be relevant to future generations. In addition to serving the needs of patients with identified disease or genetic risk factors, we work in partnership with experts across the Health System to gain new knowledge and innovate toward evidence-based, genome-first medicine.

Our clinical programs bring together multidisciplinary teams to serve a wide variety of clinical needs. Nationally renowned, board-certified physicians are supported by a team of genetic counselors who provide in-depth patient education and counseling, as well as care coordination.



Dunaief Lab

Type: Laboratory

Summary:

Age related macular degeneration (AMD) is the most common cause of irreversible blindness, yet its pathogenesis is poorly understood. Evidence suggests that cumulative oxidative damage may contribute to AMD and aging in general. My lab has found that AMD retinas have iron overload, which can increase oxidative stress. Increased understanding of retinal iron homeostasis may lead to treatments for AMD. To investigate the mechanisms of retinal iron regulation, we use transgenic mouse models, human retinal tissue, and a dual chamber tissue culture system to study iron transport. A mouse line deficient in the iron transporting ferroxidases ceruloplasmin and hephaestin develops age-dependent retinal iron overload and retinal degeneration with features of AMD (Hahn et al., PNAS, in press). Further investigation of this mouse line and others sheddling light on the pathogenesis of AMD and the mechanisms of retinal iron homeostasis are the major focus of the lab.



Early Growth Genetics Consortium

Type: Consortium

Summary:

The EGG (Early Growth Genetics) Consortium represents a collaborative effort to combine data from multiple genome-wide association studies (GWAS) in order to identify additional human genome loci that have an impact on a variety of traits related to early growth.

The consortium has initially studied child birth weight (Freathy et al. Nature Genetics 2010, Horikoshi et al. Nature Genetics 2013), as well as performing meta-analyses of more detailed measures of birth head circumference (Taal et al. Nature Genetics 2012, Ikram et al. Nature Genetics 2012), birth length (van der Valk et al. Human Molecular Genetics 2014), childhood obesity (Bradfield et al. Nature Genetics 2012), pubertal growth (Cousminer et al. Hum Molec Genet. 2013), Tanner stage (Cousminer et al. Hum Molec Genet. 2014) and childhood BMI (Felix et al. Hum Molec Genet. 2015). Through these efforts, many loci influencing these traits have been identified, a subset of which also influence adult traits and diseases.



Eckenhoff Laboratory

Type: Laboratory

Summary:

Current research is focused on perioperative neurocognitive disorders in a vulnerable brain. Our recent studies have shown that surgery produces long-term cognitive impairment in pre-symptomatic Alzheimer mice, possibly due to the transient increase in neuroinflammation and an impaired immune response. However, this effect can be modulated by the anesthetic, with propofol resulting in less cognitive dysfunction than the inhaled anesthetic, isoflurane. In humans, we found significant changes in Alzheimer biomarkers in the CSF of older patients during the perioperative period. Further research is underway to examine ways to modulate neuroinflammation after surgery and major illness.



Electron Microscopy Resource Laboratory (Penn)

Type: Core Laboratory

Summary:

The Electron Microscopy Resource Lab (EMRL) at the Perelman School of Medicine, University of Pennsylvania, is a training and service facility dedicated to providing both conventional transmission electron microscopy (TEM) of cells and tissues and state-of the art cryo electron microscopy (cryo-EM) and cryo electron tomography (cryo-ET) for structural investigation of macromolecules and cells. Our facility houses four transmission electron microscopes: JEM-1010 microscope for ultrastructure analysis; T12, TF20, and Krios G3i microscopes for cryo-EM/cryo-ET analysis. The core facility offers services to University of Pennsylvania research groups and external academic research groups in the greater Philadelphia area.



Epstein Laboratory

Type: Laboratory

Summary:

The Epstein Laboratory studies cardiovascular development, the genetics of congenital heart disease and cardiovascular regenerative and stem cell biology. The lab has a long-standing interest in congenital heart defects involving the outflow tract of the heart, the role of neural crest, the epicardium and the second heart field. More recent areas of focus include the cardiac inflow tract and the pulmonary veins and the origin of anomalous pulmonary venous return.

Other areas of interest include the factors and genes involved in progressive lineage restriction of cardiac progenitor cells and the role of epigenetics in progenitor cell expansion and differentiation. The lab is also interested in the implications of these studies for the development of new therapies for adult cardiovascular disorders including heart failure and arrhythmia. Specific projects have focused on the role of Notch and Wnt in cardiac progenitors, semaphorin signaling in the developing vasculature, the function of a novel homeobox gene Hopx and histone deacetylases in stem cells and the heart, and the role of the type I Neurofibromatosis gene (Nf1) in mouse and zebrafish cardiac development.



Exposure Biology Informatics Core

Type: Core Laboratory



Extracellular Vesicle Core

Type: Core Laboratory

Summary:

Located in the Rosenthal Building at Penn's School of Veterinary Medicine (Penn Vet), the Extracellular Vesicle (EV) Core Facility provides comprehensive or selected services in the necessary isolation, quantification and characterization of EVs.

Isolation of EV is based on size exclusion using high-performance (SEC-HPLC) or gravity fed (e.g. iZon column) liquid chromatography, ultracentrifugation, and/or density gradient ultracentrifugation. We can accurately characterize EV particle size distribution and concentration using resistive pulse sensing techniques (nCS1, Spectradyne, LLC) and Nanoparticle tracking analysis. Immunophenotype can be accomplished using nanoscale flow cytometry and/or chip array (ExoViewTM) techniques.

Additionally, we provide services in training and education for individuals and lab groups in all methods above and study design consultation to ensure that your EV work is of the highest quality and prepared for high impact publication in this exciting and rapidly growing field.



Farwell Lab

Type: Laboratory

Summary:

The Farwell Lab is part of the Department of Radiology in the Perelman School of Medicine at the University of Pennsylvania. Our research focuses on oncologic applications of molecular imaging, with an emphasis on developing new imaging tools for the rapidly growing field of cancer immunotherapy. We are particularly interested in the development of novel radiotracers / reporter genes for CAR T cell tracking, as well as the development of radiolabeled antibodies for PET imaging of the immune system. To address these research areas, our laboratory utilizes an interdisciplinary team with expertise in a variety of scientific fields, including organic chemistry, radiochemistry, molecular biology, biochemistry, and bioengineering. Many of these translational research projects begin with in vitro studies and animal models, however the goal of every project is clinical application.



Feldser Laboratory

Type: Laboratory

Summary:

Our lab is part of the Department of Cancer Biology and the Abramson Family Cancer Research Institute, two outstanding collectives of scientists working on diverse cancer related problems. Our work is dedicated to deconstructing the multistep process of tumorigenesis with the ultimate goal of developing potent strategies to eliminate cancer.



FitzGerald Lab

Type: Laboratory

Summary:

Our laboratory has two areas of interest – prostanoid biology and the role of peripheral molecular clocks in cardiovascular biology, metabolism and aging. Perhaps the distinguishing feature of our groups is that we pursue interdisciplinary translational science with a focus on therapeutics. Thus, we work in different model systems – mammalian cells, worms, fish and mice – but also in humans. Ideally we develop quantitative approaches that can be projected from our experiments in the model systems to guide elucidation of drug action in humans. To this end, we have long utilized mass spectrometry, initially to target the arachidonate derived lipidome, but more latterly also the proteome.

Currently, we are interested in several aspects of prostanoid research. We utilize a remarkably broad array of mutant mice to elucidate the biology of the two COX enzymes and the prostanoid receptors. We are particularly interested in the comparative efficacy and safety of pharmacological inhibition of COXs versus the microsomal PGE synthase– 1. We are interested in the potentially countervailing actions of prostanoids on stem cell differentiation and in elucidating the broader cardiovascular biology of prostaglandins D2 and F2α. Finally, besides inhibitors of mPGES–1 we are interested in the translational therapeutics of various receptor antagonists, aspirin and fish oils.

In the area of clock biology, we are probing the role of the clock in aging in mice and worms and using cell specific deletions of core clock components to look at how communication paradigms between discrete peripheral clocks influence cardiovascular biology and metabolism. Finally, we are taking systems approaches to investigate how perturbation of peripheral clocks result in central clock dependent phenotypes.

Finally, we are involved in the interdisciplinary PENTACON consortium designed to integrate basic and clinical research in 5 systems – yeast, mammalian cells, fish, mice and humans ( both in detail and at scale) – with the objective of predicting NSAID efficacy and cardiovascular hazard in patients.



Flow Cytometry Core Laboratory (CHOP)

Type: Core Laboratory

Summary:

The Flow Cytometry Core Laboratory provides access to state of the art instrumentation and professional flow cytometry services to members of the research community of The Children's Hospital of Philadelphia and University of Pennsylvania; investigators from outside the campus are welcome to our facility. The lab has space on the 12th floor of the Leonard and Madlyn Abramson Pediatric Research Center and on the fourth floor in Colket Translational Research Center. The staff has the required expertise for performing a variety of flow cytometry applications, including but not limited to sample processing for surface and intracellular staining, functional assays, complex multi-color flow cytometry analyses and cell sorting.



Flow Cytometry Facility (Wistar)

Type: Core Laboratory

Summary:

Overview

The Flow Cytometry Shared Resource provides investigators with the technological resources and professional assistance for high quality, multiparameter flow cytometry analyses and sorting. The Facility is capable of cell sorting (sterile, at speeds up to 30,000 cells/sec) from homogeneous or mixed cell populations based on up to 32 fluorochromes, sorting up to six separate populations simultaneously, including human-derived samples at BSL-2 level. Facility personnel aid investigators in creating efficient and cost-effective experimental designs, through optimizing cytometry-specific reagent and fluorochrome selection, and offer assistance in operation of analysis instruments. Technical support is also provided for analyses of flow and imaging cytometry data for publication, presentation, and inclusion in grant applications, management of cytometric data (storage, archiving, and retrieval), and management of a site license for low-cost post-acquisition analysis software.



Flow Cytometry and Cell Sorting Resource Laboratory (Penn)

Type: Core Laboratory

Summary:

The Flow Cytometry and Cell Sorting Resource Laboratory is currently recognized as one of the largest and most comprehensive flow cytometry laboratories in the US. In 2010 it was designated a laboratory of exceptional merit by the National Cancer Institute. Using state-of-the-art technology, the resource provides a broad array of, instrumentation, support, education and consultation to the research community at the University of Pennsylvania. A wide variety of cell sorting applications are supported, from high-speed multicolor (up to 14 colors) cell sorting to low-speed, large nozzle, improved viability sorting. Additionally, a wide variety of cell analysis services (up to 20 parameters) are offered, from traditional analog, easier to use tabletop analyzers to many-laser, many-color, high-speed, fully-digital modern instrumentation. Currently the facility offers 6 cell sorters and 19 analytical instruments. A very active training and consultation program is in place to support these activities. The Scientific Director, Dr. Jonni Moore, and the Technical Director, each have over 25 years experience in the field of cytomics. Researchers at the University of Pennsylvania are increasingly engaged in research projects that require 8-plus-parameter cell sorting of infectious cells and primary human tissues. Investigators using the Flow Cytometry and Cell Sorting Shared Resource have access to virtually any type of cytometric services required for a vast array of applications.



Fred and Suzanne Biesecker Pediatric Liver Center (CHOP)

Type: Center

Summary:

The Fred and Suzanne Biesecker Pediatric Liver Center at Children's Hospital of Philadelphia is a world leader in the diagnosis and treatment of acute and chronic pediatric liver diseases. Our mission is to provide the most skilled, compassionate and state-of-the-art care available to children with all forms of liver disease.



Functional Genomics Core (PSOM)

Type: Core Laboratory

Summary:

The Functional Genomics Core provides state-of-the-art experiment planning, sample preparation, quality assessment, library construction, DNA sequencing, and data analysis services to DRC members. We are currently operating five state-of-the-art Illumina Sequencers. We have experience with ChIP-seq, nucleosome mapping, miRNA, and genome resequencing in mouse, human, zebrafish, and other species. We offer RNAseq, microRNAseq, GroSeq, CLIP-seq, nucleosome mapping, ATAC-Seq, ChIPseq, Exome sequencing, whole genome and targeted methylome analysis, hydroxymethyl DIP, and single cell RNAseq. A second goal of the FGC is to quickly adapt and occasionally develop new protocols for sequencing-based functional genomics analysis relevant to DRC members.



GEnetic Factors for OSteoporosis Consortium

Type: Consortium

Summary:

GEFOS stands for the GEnetic Factors for OSteoporosis Consortium. It is a large international collaboration involving various prominent research groups.

Osteoporosis is a common age-related complex disease with a strong genetic component. Osteoporotic fractures account for considerable disease burden and costs. The genes responsible, however, are poorly defined. It is by now generally assumed that - like for many other complex diseases such as diabetes and cardiovascular disease - many gene variants are responsible but each with subtle effect. In a previous EU FP5 funded project, named GENOMOS, we have improved on this situation by bringing together several of Europe's largest collections of osteoporosic study populations with DNA available, and analysing the most commonly studied.

With the GEFOS project we here propose to capitalize on the success of GENOMOS by using the most advanced gene discovery tools that have become recently available, i.e., Genome Wide Association (GWA) analysis with high density SNP arrays, to identify common risk gene variants for osteoporosis.



Gait and Biomechanics Laboratory

Type: Laboratory

Summary:

The Penn Physical Medicine and Rehabilitation Gait and Biomechanics Laboratory focuses on motion and gait analysis for both patient care and research in order to better diagnose, treat, and understand movement and gait disorders.

Gait analysis is covered by insurance to aid in surgical planning in patients with gait disorders associated with cerebral palsy. Gait analysis can still be used for other applications but will be charged as fee for service



Gasser Laboratory

Type: Laboratory

Summary:

We are studying a mutant gene which when homozygous leads to a lethal kidney disease in mice. These mice undergo a spontaneous autoimmune reaction which involves multiple immune pathways. We have cloned the relevant gene, and have found that it codes for a mitochondrial protein similar to trans-prenyltransferase. This enzyme is needed for isoprenylation of coenzyme Q (CoQ), and is now known as prenyl diphosphate synthase subunit 2 (Pdss2). The mutant mice have defective mitochondria, as demonstrated by ultrastructural analysis, and we believe that this defect leads to the death of glomerular podocytes. This in turn leads to an autoimmune response which involves both the tubular interstitium and the glomeruli. The kidney disease can be prevented to some extent by CoQ supplementation, and to an even greater extent by probucol. The mechanism by which probucol does this has not been fully elucidated, but we and our collaborators (Dr. Marni Falk at CHOP and Dr. Cathy Clarke at UCLA) have demonstrated that it increases the endogenous production of CoQ.

In collaboration with Dr. Julie Blendy, Dr. Harry Ischiropoulos, and their students, we have demonstrated that these mutant mice also have neuromuscular defects that resemble Parkinson’s disease. We are currently working on several possible therapies which have the potential of treating these problems.

The human disease with the greatest similarity to this phenotype is focal segmental glomerular sclerosis, or FSGS. It is well known that there is a significant genetic component to FSGS susceptibility, and in collaboration with a group at the NIH, we have obtained evidence that PDSS2 is one of the genes that is involved in this susceptibility.



Genetic Diagnostic Laboratory (Penn)

Type: Core Laboratory

Summary:

The Genetic Diagnostic Laboratory is a non–profit laboratory at the University of Pennsylvania. Established in 1994, the Genetic Diagnostic Laboratory has had the pleasure to serve patients, physicians, and other members of the medical and research community in many states in the U.S., as well as in over 24 countries worldwide.

Our mission is to evaluate an individual's DNA to discover a genetic cause for their disease or physical symptoms, provide interpretation of the genetic finding and its association with disease, develop new methods for analyzing genes, and introduce new testing to improve patient care.

The Genetic Diagnostic Laboratory is CLIA certified and has state permits for California and Maryland. The staff of the Genetic Diagnostic Laboratory includes highly trained and experienced laboratory technicians, as well as a genetic counselor, who work continually to provide their services in a timely and professional manner.



Genetic Investigation of ANthropometric Traits Consortium

Type: Consortium

Summary:

The Genetic Investigation of ANthropometric Traits (GIANT) consortium is an international collaboration that seeks to identify genetic loci that modulate human body size and shape, including height and measures of obesity. The GIANT consortium is a collaboration between investigators from many different groups, institutions, countries, and studies, and the results represent their combined efforts. The primary approach has been meta-analysis of genome-wide association data and other large-scale genetic data sets. Anthropometric traits that have been studied by GIANT include body mass index (BMI), height, and traits related to waist circumference (such as waist-hip ratio adjusted for BMI, or WHRadjBMI). Thus far, the GIANT consortium has identified common genetic variants at hundreds of loci that are associated with anthropometric traits.



Genetics of Personality Consortium

Type: Consortium

Summary:

The Genetics of Personality Consortium (GPC) is a large collaboration of genome-wide association studies for personality. The aim of the GPC is to detect genetic variants associated with personality traits, and to further our understanding of the molecular genetic basis of personality traits.



Genomic Analysis Core

Type: Core Laboratory

Summary:

The Genomic Analysis Core combines the expertise and instrumentation of two facilities, the DNA Sequencing Facility and the Genomics Facility, to provide an integrated array of services for DNA sequencing and molecular profiling. Tapan Ganguly, PhD, the Director of the DNA Sequencing Facility since 2003, is the Director of the consolidated Core. The integration of the two Shared Resources provides more efficient access and clarity of technologies to Abramson Cancer Center (ACC) members. A team of highly experienced and trained professionals provides a whole spectrum of genomic and molecular biological services. These services are essential to ACC members for studying the role of specific genes in normal or abnormal cellular processes found in cancer cells and tumors. Investigators are able to observe global gene expression pattern in a sample, and genetic variability in an unaffected or tumor genome.



Genomics Facility (Wistar)

Type: Core Laboratory

Summary:

Overview

The Genomics Shared Resource serves as a hub for consultation and scientific interaction relating to nucleic acid-based methods. It provides expertise and support to insure the best possible outcomes for genomic related projects. The Facility supports several state-of-the-art platforms for a wide variety of nucleic acid-based studies, including massively parallel sequencing as well as routine capillary sequencing. The Facility also supports transcriptomic projects including RNA-Seq, ChIP-Seq, methylation (MeDIP), small RNA-Seq and targeted sequencing. In addition, we support gene expression studies using Quant-Seq (3’ RNA-seq) and low input sequencing for most applications. Single Cell-Seq is supported by the Takara iCell 8 MSND system. Additional platforms for targeted gene expression studies include the nanoString platform supporting all custom or commercially available applications. We also provide SNP genotyping using TaqMan assays, microsatellite analyses and C. bovis assays. RNA/DNA isolations from various types of samples, including FFPE are also provided.

In addition to consultation and collaboration with Wistar Cancer Center members, the Facility provides services to the greater scientific community.

The establishment of this facility was supported in part by an NCI Cancer Center Support Grant and equipment grants from the Commonwealth of Pennsylvania, The Pew Charitable Trusts and the National Cancer Institute."



Global Lipids Genetics Consortium

Type: Consortium

Summary:

The aim of this consortium is to study the genetic determinants of blood low-density lipoprotein (LDL) cholesterol, high-density lipoprotein (HDL) cholesterol and triglycerides.



Goldman Laboratory

Type: Laboratory

Summary:

Research Interests
Relating the structural changes to enzymatic reactions and mechanical steps of the energy transduction mechanism by mapping the real-time domain motions of the motor proteins and ribosomal elongation factors.

Molecular Motors
Motor proteins and GTP-binding proteins (G-proteins) share many structural and functional attributes. Molecular motors myosin, dynein and kinesin are prototype biological energy transducers that can be understood at a particularly fine level of detail. The obvious functional output (force and motion) allow the reaction sequence to be probed by single molecule biophysical, chemical and structural studies. A cyclic interaction between actin and myosin transforms free energy of splitting ATP into motion and mechanical work. Modified forms of this mechanism power other cell biological motions such as targeted vesicle transport and cell division. We are using novel biophysical techniques, including nanometer tracking of single fluorescent molecules, FRET sensors, bifunctional fluorescent probes and infrared optical traps (laser tweezers) to map the real-time domain motions of the motor proteins.

Protein Synthesis
Although the ribosome has been studied extensively since the unraveling of the genetic code, how it accomplishes the enormous fidelity of messenger RNA translation into amino acid sequences during protein biosynthesis is not understood. The ribosome is a motor translocating along the mRNA exactly 3 bases per elongation cycle. Energy from splitting GTP by G-protein elongation factors (EFs) is transformed into translational accuracy and maintenance of the reading frame. Codon-anticodon base pairing between mRNA and tRNA ‘reads’ the code, but EF-Tu ‘proofreads’ it. EF-G is the motor catalyzing translocation of tRNAs and mRNA. Powerful techniques developed for studies on motor proteins, including single molecule fluorescence and optical traps, may be applied to understand the structural biology, energetics, and function of EFs in their working environment.



Grupp Laboratory

Type: Laboratory

Summary:

Basic Science. The primary focus of my lab’s work is the development of targeted cell therapies and study of molecular signaling pathways in ALL. Our group has leveraged studies using primary human ALL xenografts into treatments being tested in a number of clinical trials.

We have demonstrated the importance of the mTOR pathway in leukemia and lymphoma, and demonstrated that inhibitors of mTOR signal transduction (such as sirolimus) are effective agents against pre-B ALL and against the lymphoproliferative disorder ALPS. These findings have direct translational significance in both ALL and ALPS, leading to Phase I, II, III (ASCT0431) and pilot trials in these diseases. We also demonstrated that signaling through the IL-7 receptor is key in the response of early B ALL cells to mTOR inhibitors. IL-7 and a related molecule called TSLP reverse the effect of mTOR inhibitors on pre-B ALL cells, providing insights into the potential mechanisms of the mTOR effect and a further opportunity for signal transduction inhibition in ALL. We are the ALL Xenograft Core Lab for the COG.

Translational. As the CCCR Director of Translational Research, I oversee research into clinical use of hematopoietic stem cells and T cell-based therapies. As an example, we have performed trials to improve outcome in neuroblastoma (NBL), a disease that has <15% long-term survival with chemo and ~35% with single autologous stem cell transplant (SCT). This has also lead to a phase III trial (ANBL0532) in the COG.

More recently, our group has been working with Dr. Carl June and the Penn Translational Research Program on chimeric antigen receptor (CAR)-based engineered T cell therapies. One target is CD19 in ALL, where we have developed chimeric immunoreceptor-armed T cells in an ongoing basic and translational collaboration with the June group. This approach has now been taken into pilot trials at CHOP and Penn. The first three adult patients on this clinical trial experienced remarkable clinical responses and unprecedented persistence and expansion of the therapeutic cells. We are now seeing similar results in pediatric patients with ALL.



Healthcare Analytics Unit Core (CHOP)

Type: Core Laboratory

Summary:

The Healthcare Analytics Unit (HAU), a core facility of CHOP’s Research Institute that is co-directed by CPCE and PolicyLab, administers these resources. HAU’s staff has expertise in managing and using various data sources, ranging from electronic health records and clinical trial or registry data to administrative, claims, or survey data.

The HAU serves as a resource for CPCE, PolicyLab, and other CHOP investigators using complex data to address research questions. HAU provides services in data extraction and management, statistical programming, biostatistics analysis, and analytics data consultation.



High-Throughput Screening Core (Penn/CHOP)

Type: Core Laboratory

Summary:

The High-throughput Screening (HTS) core provides the Perelman School of Medicine community with professional HTS screening services to identify genes or organic small molecule modulators of signaling pathways, cellular phenotypes, and protein function in models of human disease. Core staff will educate and assist scientists with HTS assay development, optimization, miniaturization, and validation; maintain libraries of siRNA, shRNA, cDNA, and FDA approved/FDA-like organic small molecule libraries for HTS; and provide robotics infrastructure and technically trained staff for HTS, including small screens of user defined libraries. The High-throughput Screening core also provides direct assistance with preparation of grant applications by drafting experimental designs approaches and providing Letters of Support, offering HTS resources and analysis expertise for the proposed research.



High-performance Computing (Penn)

Type: Core Laboratory

Summary:

The PennHPC facility opened in April of 2013 to meet the increasing growth in genomics processing and storage, as well as growth in other scientific areas requiring computational capacity such as imaging and biostatistics/bioinformatics. The cluster is managed by two fulltime system administrators, and is located at the Philadelphia Technology Park, a Tier-3, SSAE 16/SAS 70 Type II Audit compliant colocation/datacenter facility.



Histology Core

Type: Core Laboratory

Summary:

The mission of the Penn Center for Musculoskeletal Disorders (PCMD) Histology Core is to provide comprehensive, high quality histology services to musculoskeletal researchers at the University of Pennsylvania and the broader research community.

The Specific Aims of the core are:
-- To provide guidance and training on the capabilities, advantages, and disadvantages of the various methodologies to assess musculoskeletal tissue structure and composition through formal educational enrichment programs and one-on-one interactions.
-- To provide expertise and service for histological and histomorphometric assays of musculoskeletal tissues.
-- To develop new histologically-based techniques that will be applicable to musculoskeletal research.
-- To provide funding for development of new projects and collaborations and to develop preliminary and/or feasibility data for investigators.



Histology and Cellular Localization Core (Monell)

Type: Core Laboratory

Summary:

The Histology and Cellular Localization Core provides training and research support in microscopy, anatomy and histology of chemosensory systems. Core personnel work with Monell researchers to develop and optimize in-house procedures and to establish cutting-edge techniques in histology and cell anatomy. The Core provides centralized services such as tissue sectioning and in situ probe preparation. The Core facility is equipped with cryostats, fluorescence microscopes, confocal microscopes, and a two-photon microscope.



Histology and Gene Expression Co-op

Type: Core Laboratory

Summary:

The Histology and Gene Expression Co-op Facility provides expert professional services for members of the Cardiovascular Institute. Services for non- Institute investigators are available on a fee-for-service basis as time permits. The Histology and Gene Expression Core offers all histology-related services include tissue processing, embedding, sectioning, staining, immunocytochemistry and InSitu Hybridization.



Histotechnology Facility (Wistar)

Type: Core Laboratory

Summary:

Overview

The Histotechnology Shared Resource provides services for fixing, processing and paraffin or OCT-embedding of all types of tissues for light microscopy (e.g. routine stains, immunohistochemistry or in situ hybridization). The Facility staff performs routine hematoxylin, eosin staining, immunochemistry and FISH staining, as well as specialized staining and slide preparation for immunohistochemistry and in situ hybridization.

Frozen sectioning is also available, including consultation regarding freezing and fixing techniques to optimize experimental results.



Hogenesch Laboratory

Type: Laboratory

Summary:

Our laboratory studies the mammalian circadian clock using genomic and computational tools. We use these tools to discover new clock genes, learn how the clock keeps time, and how it coordinates rhythms in physiology and behavior. This clock research drives development of genomic and computational methods that we apply to other areas of biology. Finally, we recognize biological complexity and conduct this research at the network, rather than single gene, level.



Host-Microbial Analytic and Repository Core

Type: Core Laboratory

Summary:

The mission of H-MARC is to provide services that will enhance the analysis of both host and microbial biological processes as well as facilitate translation into the clinical arena via human subject research.



Human Immunology Core (Penn)

Type: Core Laboratory

Summary:

The Human Immunology Core provides reagents and scientific expertise to investigators studying immune function in humans. The core serves as a central facility for cell and tissue processing, generation of human blood cell products, and the performance of qualified cellular and molecular immune assays for early-phase clinical trials. Assays include multicolor immunophenotyping, high throughput sequencing of T cell receptor and B cell receptor genes, luminex, ELISPOTs, ELISA and expert scientific and technical consultations to investigators wishing to develop or incorporate the newest immunology technologies into their research.



Human Pluripotent Stem Cell Core (CHOP)

Type: Core Laboratory

Summary:

The Human Pluripotent Stem Cell Core was established in 2008 as part of the Center for Cellular and Molecular Therapeutics. Our mission is to provide expertise and quality-control reagents for the culture and differentiation of human embryonic stem cells (ESC) and induced pluripotent stem cells (iPSC) to CHOP, the University of Pennsylvania, and outside academic communities.

An infrastructure and solid foundation has been created for the generation of iPSC lines that are used by investigators worldwide for modeling human disease to study mechanism, development, and establish new therapeutic modalities. A recent addition to the core has been the establishment of the genome editing technology using CRISPR/Cas. This technology is being utilized on iPSCs established by the Core for creating isogenic lines that eliminate the clonal heterogeneity and variability in downstream applications. We provide enrichment courses to actively train investigators with the necessary tools and expertise to maximize successful outcomes.



Human inducible pluripotent stem cells- Gene Therapy Program

Type: Core Laboratory

Summary:

Human inducible pluripotent stem cells (hiPSC) play an emerging role for individualized medicine and drug screening. The iPSC Resource Center utilizes human iPSCs in combination with directed differentiation to model genetically defined diseases, and uses this platform to screen viral vectors for gene therapy.



Hunter Laboratory

Type: Laboratory

Summary:

Dr. Hunter has been working on various aspects of basic parasitology since 1984 and for the last 25 years there has been a focus on understanding how the protective immune response to Toxoplasma gondii develops and how this relates to other parasitic infections.

The Hunter Laboratory team has focused on the innate events that lead to the development of long term protective immunity mediated by T and B cells. These studies led us to develop expertise in cytokine biology and, while the focus has been in understanding their role in infectious disease, these findings are frequently relevant to cytokine function in autoimmunity and inflammatory processes associated with human disease.

For example, as part of studies to understand how IL-12 family members affect immunity to the T. gondii, we showed that IL-27 was important in limiting the T cell-mediated infection-induced inflammation. We have defined the mechanisms used by IL-27 to influence the immune system and our work has been shown to be relevant to inflammatory processes in multiple experimental systems that includes other infections as well as models of auto-immune inflammation, asthma and cancer.

Since toxoplasma causes a chronic infection in the brain there has been a long-term interest in the neuropathogenesis of infectious diseases and how lymphocytes access and operate in this immune privileged site.

In this laboratory we have developed all of the skills required for the routine analysis of multiple innate immune parameters and to quantify DC, macrophage, NK, T and B cell responses to infection.

We are also able to utilize different combinations of transgenic parasites (replication deficient, expressing fluorescent reporters, distinct model antigens OVA and E and the Cre recombinase) and TCR transgenic T cells to provide higher resolution analysis of individual parasite specific CD4 and CD8 T cell populations and apply multi-photon microscopy to image the innate and adaptive response to T. gondii.



Hydar Ali Laboratory

Type: Laboratory

Summary:

Asthma is a chronic inflammatory disease, which is associated with the recruitment of mast cells to the lung and their activation. It is well known that aggregation of high affinity IgE receptors (FceRI) on mast cells and the subsequent mediator release contributes to the development of allergic asthma. However, emerging evidence suggests that transactivation of G protein coupled receptors (GPCRs) for the complement component C3a contributes to the exacerbation of allergic diseases. The main focus of our laboratory has been to delineate how G protein coupled receptor kinases (GRKs) and the adaptor molecule β-arrestin regulate C3a receptor function in mast cells. We unexpectedly found that GRK2 and β-arrestin2 serve as novel adaptor proteins to promote IgE-mediated mast cell chemotaxis, degranulation and cytokine gene expression. We are currently utilizing both in vitro and in vivo approaches to delineate how GRK2 and β-arrestin2 regulate FceRI signaling in mast cells to modulate allergic asthma.

Surface epithelial cells, when activated by pathogen-associated molecular patterns (PAMPs) release small cationic antibacterial peptides (AMPs), known as defensins and cathelicidins. These AMPs display potent antimicrobial activity, modulate immune responses and likely participate in the exacerbation of allergic diseases such as asthma and urticaria. Recently, we made the unexpected observation that AMPs activate human mast cells via a novel GPCR (Mas-related gene X2; MrgX2). Most interestingly, we found that unlike C3a receptor, MrgX2 is resistant to regulation by GRK2 or β-arrestin-2. It is noteworthy that unlike human mast cells, murine mast cells do not express MrgX2 and are resistant to activation by AMPs. We are currently engrafting human CD34+ hematopoietic stem cells (HSCs) into severely immune-deficient mice. In addition to human immune system, these “HUMANIZED MICE” develop human tissue mast cells are responsive to AMPs for activation in vivo. We are currently using the humanized mouse model to determine the role of MrgX2 and its signaling on anaphylaxis and asthma in vivo.



ITMAT Bioinformatics Facility (Penn)

Type: Core Laboratory

Summary:

The ITMAT Bioinformatics Facility provide project based bioinformatics support for ITMAT translational researchers. Our focus has been on providing the computational infrastructure and programming support needed to conduct high-throughput proteomics experiments. We also support other genomics high-throughput technologies to a lesser extent. See the resources page for more information on our projects and what we have to offer.
The projects range from building easy to use Web applications for data analysis pipelines, one-off scripting, clinical and basic science research support, algorithm development. Recent efforts have focused on explorations of new models of computation, specifically Cloud Computing and GPUs, for use in genomic scale research. Feel free to contact us for more information.



Image Analysis and Gene Expression Quantification Core

Type: Core Laboratory

Summary:

A number of analytic instruments to qualify and characterize gene expression are available for use. Reservations may be required (see above). Additionally, the Core subsidizes the cost of specific Penn-based technical services to assist Center members in their research projects.

Equipment available in room 933 BRB II/III for use by all Center Members:
ABI 7000 Sequence Detection System, $25/plate
ABI StepOne Plus Real-Time PCR System, $25/plate
Agilent Bioanalyzer (Penn’s Microarray Facility)
Becton Dickinson Accuri C6 Flowcytometer
BioRad Gel Doc XR+ Imaging System
Molecular Dynmaics 840 Phosphoimager
Odyssey Infrared Imaging System (Li-Cor) $25/use
Promega GloMax Multi Detection System
Thermo Scientific Nanodrop 2000 Spectrophotometer

Ancillary equipment available:
Thermal Cycler (ABI 2720)
Dissecting Microscope (Olympus)
Seven -80C Freezers with wireless alarm monitoring
Polytron PT-10-35 Homogenizer

Software available:
MacVector 7.0
Lasergene 5.0
Prism 4/6 (Graphpad)
Chenomx NMR Suite



Imaging Facility (Wistar)

Type: Core Laboratory

Summary:

The Imaging Facility is a shared resource with the primary goal of providing exceptional microscopy and imaging services, as well as individual access to a variety of state-of-the-art imaging resources for members of the Wistar research community. The imaging systems have been designed to be extremely flexible to reflect a broad range of challenging scientific questions and specimens. Each system provides a combination of illumination, optics and image capture options. Diverse subjects ranging from fluorescently tagged live cell cultures and stained tissue sections, to 3D tumor spheroids and low magnification explanted tissues, can be accommodated with available systems.

Current equipment includes standard upright and inverted fluorescence microscopes, a customized live-cell time lapse microscope capable of 6D imaging, a laser scanning confocal microscope, a 2-photon microscope designed for in vivo imaging, a small animal, whole body luminescence and fluorescence imager, special low magnification (photomacrography) systems as well as a variety of traditional photographic cameras, lenses and lighting equipment. Users of the facility may be trained for unassisted use of all core assets, or they may elect assisted service with the facility staff performing the imaging.

The Imaging staff also provides assistance to researchers with additional aspects of their imaging requirements. Ideal approaches to specimen documentation are often unique to the experiment and the staff can help design the most effective imaging protocols to answer a particular question. On-site assistance is available to help investigators get the most out of their own systems. Image analysis and specialized Photoshop training, creative imaging for journal covers, and guidance on digital imaging ethics help to round out the services available from the facility.



Immunology Core

Type: Core Laboratory

Summary:

The mission of the Immunology Core is to further innovative, interdisciplinary and translational research that enhances our understanding of the pathogenesis and immunopathogenesis of HIV/AIDS; provides new approaches toward understanding cellular, humoral and innate responses to HIV; and develops novel HIV therapy and vaccine strategies. To achieve these goals, the Core provides state-of-the-art immunological services and reagents; specialized technology; leadership, expertise and advice; and collaborative support in the area of immunological research to the Penn CFAR community. The Core also works closely with the Perelman School of Medicine Human Immunology Core (HIC).



Immunology Core- Gene Therapy Program

Type: Core Laboratory

Summary:

Immune responses to products of viral vectors have posed formidable barriers to efficient gene therapies. The important immune effectors of the immune response include CD4+ T helper cells, CD8+ cytotoxic T cells, which are responsible for mediating elimination of transgene expression and B cells which produce neutralizing antibodies that block effective readministration of vector. In addition immune responses directed to neoantigens expressed by the transgene in vector-transduced cells, are also responsible for the rapid elimination of transgene expression. The Immunology Group is responsible for performing various assays to evaluate both cell mediated- as well as humoral immune responses in animal models of gene therapies. In this respect, the Group has undertaken analyses of immune responses in pre-clinical trials in gene therapy in mice, rats, rhesus monkeys, and dogs and in several clinical trials. These assays monitor adenovirus-, adeno-associated virus- and transgene-induced cell mediated and humoral immune responses.

The following schematic illustrates the various immunological processes for which the Immunology Group has developed methodologies:
schematic from core website
Figure Legend: Antigen taken by antigen presenting cells (APC) is processed and presented by MHC class I to CD8 T cells , and MHC class II to CD4 T cells . Recognition of the antigen, along with costimulatory molecules (B7-CD28; CD40-CD40 ligand) results in activation of antigen-specific CD4 T cells, which leads to lymphoproliferation and cytokine secretion . Depending on several conditions (e.g. strength of antigen signaling, costimulation, cytokines secreted by APC, etc.) CD4 T cells differentiate into either TH1 or TH2 type cells. TH1 cells secrete predominantly IFNg (interferon-gamma), which plays a role in activation of cell mediated immune responses which culminates in activation of cytotoxic T lymphocytes . CTL have been shown to be responsible for elimination of transduced cells in vivo by effector mechanisms involving Fas-FasL and perforin-granzymes. TH2 cells on the other hand secrete IL-4, which helps B cells differentiate into antibody secreting plasma cells. Secretion of neutralizing antibodies results in blocking of vector readministration. The nature of the neutralizing antibody response can be measured by determining the antigen (by Western blot) and isotype of the immunoglobulin.

Understanding the molecular mechanisms involved in the cascade of events from antigen uptake by antigen presenting cells to differentiation of T and B cells, will allow development of therapeutic immunosuppressive agents to allow persistent transgene expression and ability to readminister viral vectors.



Induced Pluripotent Stem Cell Core Facility (Penn)

Type: Core Laboratory

Summary:

The Penn Institute for Regenerative Medicine (IRM), which has been at the forefront of stem cell research and translational medicine, established the iPSC Core in 2009 to promote this powerful technology on campus and surrounding institutions. The goals of the Core are:

• to facilitate derivation of induced pluripotent stem (iPS) cells from somatic cells;
• to provide expertise and training to researchers in embryonic stem (ES)/iPS cell culture;
• and to serve as a resource for sharing iPS cell lines and iPSC technology within the UPenn and the broader scientific community.



Institute for Biomedical Informatics

Type: Institute

Summary:

The primary role of the IBI is to provide an interdisciplinary home for basic science faculty in biomedical informatics, as well as mechanisms to connect genetic, genomic, and phenotypic data and knowledge to provide personalized medicine to Penn Medicine patients. These research communities will be encouraged to collaborate through partnerships with clinical and basic science departments and centers, IBI pilot grant programs, core services, co-mentoring trainees, seminars and colloquia, and through yearly retreats.



Institute for Diabetes, Obesity and Metabolism

Type: Institute

Summary:

The IDOM was established in 2005 to address the ever increasing prevalence of diabetes and obesity. In 2016, there were 29.1 million people with diabetes in the United States, and more than one-third of U.S. adults are obese. In 2012, the cost of diabetes was estimated at $245 billion per year, and the Centers for Disease Control has projected that one out of three children born in the year 2000 will develop diabetes in his or her lifetime.
The mission of the IDOM is to support and develop successful approaches to the prevention, treatment, and cure of diabetes mellitus and obesity.

Our Strategy
The leadership of the IDOM embraces a disease-oriented approach that focuses on Type 1 diabetes, Type 2 diabetes, Obesity, and Cardiovascular Complications. IDOM enhances and supports research aimed at understanding the genetic, biochemical, molecular, environmental, and behavioral mechanisms underlying diabetes and obesity. IDOM initiatives include critical and unique scientific core facilities, and pilot grants that support new investigators as well as interdisciplinary science involving investigators from Penn Medicine and throughout the University of Pennsylvania that are relevant to the IDOM mission. IDOM also fosters education by organizing a series of seminars, workshops, and symposia. We are proud of the many outstanding discoveries made by IDOM investigators, and are committed to the translation of this new knowledge into novel approaches to patient care. We are also grateful for philanthropy in support of our mission.



Institute for Environmental Medicine

Type: Institute

Summary:

The Institute for Environmental Medicine will provide a Medical Center, University and national focus for research and education related to the hyperbaric and undersea environments and their interfaces with the respiratory and neurological systems.
To carry out this mission, the Institute will:
-- Conduct basic research in high pressure and altitude physiology, lung cellular and molecular biology, inhalational toxicology, and hyperbaric oxygenation therapy.
-- Establish a Clinical Practice to provide emergency and elective consultation and supervision for hyperbaric oxygenation therapy.
-- Provide opportunities for undergraduate, graduate and postdoctoral research and clinical education and training.
-- Maintain and operate a hyperbaric/environmental chamber system for research and therapy.



Institute for Medicine and Engineering

Type: Institute



Institute for Regenerative Medicine

Type: Institute

Summary:

Established in 2007, Penn’s Institute for Regenerative Medicine (IRM) was formed to promote basic discoveries in stem cell biology and regeneration, and to translate those discoveries into new therapies that may alleviate suffering and disease. Researchers at the IRM seek an understanding of how cells and tissues are formed as well as how they can be repaired or replaced when damaged or lost due to injury, disease or aging. This field of medicine is called regenerative medicine.



Institute for Translational Medicine and Therapeutics

Type: Institute

Summary:

The Institute for Translational Medicine and Therapeutics (ITMAT) supports research at the interface of basic and clinical research focusing on developing new and safer medicines. ITMAT includes faculty, basic research space, and the Clinical and Translational Research Center (CTRC), which now includes the former General Clinical Research Center (GCRC) of both Penn and the Children's Hospital of Philadelphia (CHOP). ITMAT also offers research cores, educational programs (including a Masters in Translational Research), and research centers.



Institute of Aging

Type: Institute

Summary:

The University of Pennsylvania's Institute on Aging was created in 1979 to improve the health of the elderly by increasing clinical and basic research as well as educational programs focusing on normal aging and age-related diseases across the entire Penn campus.
Housed within Penn's Perelman School of Medicine, the Institute on Aging is deeply committed to forging new paths in basic science and clinical care for the benefit of older adults.
Under the directorship of John Q. Trojanowski, MD, PhD, nearly 200 Institute on Aging fellows, representing faculty from 12 schools at Penn and aging experts outside of Penn, are focused on age-related areas of interest, including healthy aging, diseases of aging, public policy, law, nursing and economics.
In 2012, Penn ranked second highest for total research funding received from the National Institute of Health's National Institute on Aging (NIA). Current research projects are wide-ranging, investigating neurodegenerative diseases, frailty, and longevity, among other areas.
The Institute on Aging hosts several events per year on the latest research in aging, many of which are open to the public.



Integrative Health Sciences Facility Core

Type: Core Laboratory

Summary:

The IHSFC is the entity that enables CEET investigators to perform translational environmental health research that impacts individuals and communities. Its mission includes (1) support of the translation of basic science observations that relate environmental exposures to adverse outcomes into human studies that detect, prevent and/or manage diseases induced or exacerbated by these exposures and (2) to translate EHS questions derived from the community into testable hypotheses that can be addressed with human studies. Services provided by the IHSFC to CEET investigators include: (a) Human Studies Design and Performance Services, (b) Population Exposure Services, (c) Pre-clinical and Human Exposure Laboratories, (d) the CEET Virtual Biorepository and (e) Biostatistics Services.



Intellectual and Developmental Disability Research Center (CHOP/Penn)

Type: Center

Summary:

The IDDRC at CHOP/Penn has been a leader in advancing IDD research for over 29 years. Novel concepts and technologies, many of them barely imaginable 29 years ago, today are a “routine” component in the vocabulary of medical research. Our Center wholeheartedly embraced these innovations, which we considered a boon toward realization of our mission: to discover the causes of IDD and use this knowledge to improve the outcome of affected people.
Our Mission
Our mission is to enable research that enhances understanding of:
The causes of intellectual and developmental disabilities;
The impact of these tragic disorders on the affected child and his or her family; and
The translation of this knowledge into treatments that alleviate suffering and maximize individual potential
Our Goals
In order to fulfill our ambitious mission, our Center has set forth the following goals:
-- Research
-- Training
-- Advocacy
-- Networking



International Consortium for Blood Pressure

Type: Consortium

Summary:

The ICBP consortium is an international effort to investigate blood-pressure genetics. The consortium was formed by two parent consortia, the CHARGE-BP consortium (Cohorts for Heart and Aging Research in Genomic Epidemiology - blood pressure) and the GBPGEN consortium (Global Blood Pressure Genetics Consortium).



International Core

Type: Core Laboratory

Summary:

The International Core was established to expand Penn's involvement in International Medicine and to promote innovative international research, critical to better understanding the global nature of the HIV epidemic. To achieve these goals, the Core provides leadership in developing HIV/AIDS research and training in Botswana, and has adopted the following Specific Aims:

(1) To expand infrastructure and support in order to establish and maintain strong clinical, behavioral, and translational research programs in Botswana involving Penn and Batswana investigators.

We achieve these goals by: a) providing on-site scientific oversight of research projects in Botswana; b) advising Penn and Botswana scientists on the feasibility of their proposed research studies based on our knowledge of the patient population and the infrastructure available to perform the studies; c) identifying local collaborators for Penn investigators, and Penn collaborators for local investigators to pursue research projects, and (d) assisting Penn and Batswana investigators in obtaining IRB consent in Botswana through the Ministry of Health (MOH) and the Princess Marina Hospital IRB committees, and assisting with online training for study personnel to obtain certificates of human subjects research protection.

(2) To train investigators from Penn and Botswana who are interested in international research.

We view capacity building in country as a central long-term mission of the Core. With the opening of a new medical school at the University of Botswana in August 2008 (the first in the country), enormous opportunities exist for mentoring and training our counterparts in Botswana. The Penn leadership of the International Core has outstanding relationships with the leadership at the University of Botswana, establishing an excellent environment for collaborative research. The excitement of international investigation is attracting many Penn trainees to Botswana for research experience. An important goal is to facilitate mentorship of trainees to develop the skills necessary to become future leaders in global health research.



International Genomics of Alzheimer's Project

Type: Consortium

Summary:

The International Genomics of Alzheimer's Project (IGAP) is releasing the summary results data from the 2013 meta-analysis of Genome-wide Association (GWA) data in Alzheimer's disease, in order to enable other researchers to examine particular variants or loci for their evidence of association. The files include p-values and direction of effect at over 7 million directly genotyped or imputed single nucleotide polymorphisms (SNPs). To prevent the possibility of identification of individuals from these summary results, allele frequency data are not released.



International Headache Genetics Consortium

Type: Consortium

Summary:

International Headache Genetics Consortium (IHGC) is a multinational research collaboration studying genetic causes and background of headache and related disorders. It aims to boost research in this area by bringing together the increasing wealth of well-characterised genetic information and high quality diagnostic data, as well as analysis expertise, to discover basis for future treatments.

Consortium members include migraine research groups from Australia, Denmark, Estonia, Finland, Germany, Iceland, the Netherlands, Norway, Spain, Sweden, the UK and USA.



International Inflammatory Bowel Disease Genetics Consortium

Type: Consortium

Summary:

In recent years the IIBDGC has focused on collecting very large datasets from a diverse set of countries via world-wide collaboration. In addition to enabling the discovery of all these genes, we also try to dig a little deeper into what these associations actually mean. Our latest paper takes this further than we ever have before, involving analysts from a dozen research groups and using the latest statistical techniques to look for patterns across the 163 regions.

The combination of all this information allowed us make new statements about IBD risk that no single locus can tell us: IBD is not just genetically similar to other diseases of immunity, but is particularly closely related to certain inflammatory disease such as psoriasis. IBD risk is not only related to changes in the immune system, it is related to a particular subset of immune cells and signals. Not only is IBD risk related to susceptibility to bacterial infection, it is remarkably strongly connected with susceptibility to the family of bacteria that includes leprosy and TB.

In contrast to just five years ago, discovering genes for disease is no longer the hard part. Future studies, including those of the IIBDGC, will have to focus not just on discovering new associations, but also on turning those associations into new biological understanding.



Interventional Radiology Animal Catheter Lab (Penn)

Type: Core Laboratory

Summary:

In the Interventional Radiology Catheter Lab minimally invasive procedures are performed via fluoroscopy, ultrasound and endoscopy. Percutaneous vein and arterial access is performed via ultrasound-guided technique. Surgeons are then able to guide catheters, ballon dilation, and other small instrumentation through the blood vessels. Procedures that have been performed in the lab are:

• Angiography
• Aneurysm creation
• Balloon angioplasty
• Embolization (coil, glue, embospheres)
• Inferior vena Cava (IVC) filter placement & retrieval
• Selective arterial catheterization
• Stent placement (renal, gastric, iliac)
• Peroral gastroenteric anastomosis

This lab has capabilities for full surgical and anesthesia protocols and full fluoroscopy imaging. Included in the lab are a small office space, an LCD monitor and computer for the fluoroscopy unit, eye wash station and a surgeon scrub sink.



Investigational Drug Service (Penn)

Type: Core Laboratory

Summary:

The Investigational Drug Service (IDS) is the research pharmacy for the University of Pennsylvania, providing services for clinical and pre-clinical drug and device trials to investigators at all Penn schools, UP Health System hospitals and clinics and affiliated institutions.

The IDS is able to offer a range of services to investigators, from preparation, dispensing and inventory management for inpatient and outpatient trials, to formulation of blinded dosage forms or placebos to match existing medications, randomization tables and blinding schemes, specialized packaging and distribution, as well as limited release testing of finished products. We can assemble draft materials for CMC (IND) submissions or draft language for protocols, describing our activities related to your specific protocol. As a core facility, we pass along our actual costs on an hourly basis for these services. We maintain a highly secure, temperature-controlled facility and an electronic inventory system.



Johnson Foundation Biophysical and Structural Biology Core

Type: Core Laboratory

Summary:

The Department of Biochemistry and Biophysics at the University of Pennsylvania is privileged to have a wide range of unique equipment and expertise to facilitate modern biophysical characterization and structural analysis of proteins and other biomolecules. These facilities, funded in large part through the generosity of the Johnson Foundation, are available for use by the research community at Penn and beyond.



Joint Penn-CHOP Center for Digestive, Liver and Pancreatic Medicine

Type: Center

Summary:

Penn-CHOP Center for Digestive, Liver and Pancreatic Medicine Center was established based upon a rich history and tradition of interaction, collaboration and productivity between Penn GI and CHOP GI spanning back to the 1980s. It is truly unique in the country.

The overall mission of the Joint Center is transitional medicine, helping adolescents take the step from Pediatric care to Adult care. Our goal is to establish joint clinics, where physicians from CHOP and Penn meet jointly with transition age patients to discuss medical histories and future treatment options. With the help of clinical coordinators, we make the transition process seamless for patients and their families.

The transitional medicine focus of the Joint Center has great emphasis in research and in education. Research integrates basic, translational and clinical approaches, and has achieved success through the garnering of new interdisciplinary NIH grants. There is a deep commitment to the training and education of the next generation of leaders - students, residents and fellows.

The integrated programs in the Joint Center include the following diseases:

1) Inflammatory bowel disease (ulcerative colitis, Crohn's disease)
2) Medical Genetics/Liver disease (inherited predisposition to benign and malignant digestive disorders and diseases)
3) Autoimmune diseases (eosinophilic esophagitis, celiac sprue)
Nutrition



Jordan Laboratory

Type: Laboratory

Summary:

T cells integrate multiple signals from their environment. The culmination of these signals direct the fate of developing thymocytes, dictating the outcome of thymocyte selection and T-regulatory (Treg) cell development. Mature peripheral T cells also integrate multiple signaling pathways during encounter with pathogens and are directed to differentiate into one of several T cell effector subsets.

We are interested in understanding how specific pathways direct these differentiation steps in thymocytes and peripheral T cells. Currently we are focusing on signaling pathways and epigenetic modifiers that have recently been implicated in T cell lymphomagenesis with an aim towards understanding how these pathways and enzymes direct both normal and malignant T cell biology. Some active areas of investigation include the following:

• T cell activation leads to transient changes in the activation states of many proteins and enzymes, but it also results in heritable changes at the epigenetic level. DNA methylation is a common epigenetic modification that is regulated via both active and passive mechanisms. TET2 is a methylcytosine dioxgenase involved in the active demethylation of DNA and is frequently mutated in a specific class of T cell lymphomas. Our lab has shown that TET2 regulates the development of memory CD8+ T cells as well as CD4+ T cell differentiation. We are currently identifying the targets of TET2 to understand the mechanism by which it regulates T cell differentiation. We are also interested in CXXC5, a negative regulator of TET2, to determine its TET2 –dependent and –independent functions in T cell activation and differentiation.

• The GTPase RhoA is important for thymocyte development and is activated downstream of the T cell receptor and integrins. RhoA regulates actin reorganization and has been implicated in T cell metabolism. Recently, RhoA mutations have been identified in T cell lymphomas, often co-occurring with TET2 loss-of-function mutations. Using both in vitro and in vivo models of regulated RhoA expression, we are investigating the mechanism of RhoA function in healthy and diseased states.



Joseph Stokes Jr. Research Institute

Type: Institute

Summary:

Currently known as The Children's Hospital of Philadelphia (CHOP)



Julie Blendy Laboratory

Type: Laboratory



June Lab

Type: Laboratory

Summary:

The June Lab is primarily responsible for developing new CARs and new vectors for current and proposed indications. This lab also fosters the development of Penn students both in doctoral and post-doctoral programs. The June Laboratory provides researchers with the tools they need to translate laboratory insights into safe and effective cancer therapies. The June Laboratory works with University of Pennsylvania faculty members interested in moving biologically-focused research ideas into clinical trials. In addition, the June Laboratory has a cadre of faculty researchers focused on developing ways to enhance the ability of the natural immune system to recognize and eliminate tumor cells.



Kaestner Laboratory

Type: Laboratory

Summary:

The Kaestner lab is employing modern mouse genetic approaches, such as gene targeting, tissue-specific and inducible gene ablation, to understand the molecular mechanisms of organogenesis and physiology of the liver, pancreas and gastrointestinal tract.



Kambayashi Laboratory

Type: Laboratory

Summary:

Research summary:

1) Regulation of T cell responses
T cells are pivotal players in the immune response. They are beneficial in combating infections and cancer but can also be harmful in autoimmunity and immunopathologic states. T cell activation is primarily initiated by intracellular signals emanating through their T cell receptor. These signals can be further modified by engagement of other cell surface receptors and by negative regulators of signaling. Currently, we study the role of the NK cell receptor NKG2D in controlling T cell activation. In addition, we are investigating the roles of negative regulators of calcium and daicylglycerol signaling in T cell activation and differentiation.

2) Regulatory T cell expansion and homeostasis
In addition to the cell-intrinsic regulation of T cell activation as described above, T cells are controlled cell extrinsically by regulatory T cells. Regulatory T cells represent a subset of CD4+ T cells that possess the ability to suppress the activation and expansion of other conventional CD4+ T cells. They are distinguished from conventional T cells by constitutive expression of CD25 and the transcription factor Foxp3. The importance of regulatory T cells is evidenced by the severe autoimmunity that develops in mice and humans lacking regulatory T cells. We are actively investigating how signal transduction processes affect the development, homeostasis, expansion, and function of regulatory T cells. We translate our findings to therapeutic approaches in the prevention of inflammatory diseases such as multiple sclerosis, graft-versus-host disease, diabetes, rheumatoid arthritis, and inflammatory bowel disease.

4) NK cell education and signaling
NK cells are innate immune cells that provide a critical line of defense against intracellular pathogens and tumors by displaying cytotoxicity and producing immune-activating cytokines. One key mechanism that regulates their activation involves the expression of activating receptors that are finely counterbalanced by inhibitory MHC class I-binding receptors. Thus, the interaction of NK cells with abnormal cells that have decreased MHC class I expression relieves the inhibition conferred by the MHC-binding inhibitory receptors, leading to activation and cytotoxicity by the NK cell. NK cells heterogeneously express one or more of the many inhibitory receptors, which are acquired by NK cells during later stages of their development. The heterogeneity of NK cell receptor expression allows NK cells to discriminate between cells expressing normal and abnormal amounts of various MHC class I molecules. As the signaling requirements of these receptors during development and effector function remain unclear, we have been investigating the signal transduction pathways during NK cell activation. In doing so, we have identified some key signaling molecules that are necessary for proper acquisition of MHC-binding inhibitory receptors during development. We are further investigating the molecular mechanisms that are responsible for regulating inhibitory receptor acquisition during NK cell development and how it relates to the functional outcome of the NK cell response.



Kazazian Laboratory

Type: Laboratory

Summary:

Research Interests
-- Population genetics of active L1 retrotransposons in humans.
-- Individual differences in retrotransposition capability have global effects on genome diversity and human evolution.
-- A mouse model of human L1 retrotransposition as a tool for insertional mutagenesis and discovery of gene function.
-- The SVA element is a non-autonomous retrotransposon that can cause disease
-- Preclinical trials of AAV-mediated gene therapy of hemophilia A in mice and dogs.



Kim Laboratory: Computational Evolutionary Biology

Type: Laboratory

Summary:

A key property of living objects is that each object, whether they are proteins, cells, or whole organisms, has an associated generating process, that is, a decoding process whereby stored information is converted into a complex functioning biological object. For example, generating a protein involves translation and folding; generating an organism involves a cascade of gene regulatory and cell biological processes. We are interested in such bio-generative processes and understanding the temporal control and architectural constraints of these processes.

Questions include how to infer the organizational structure of such generative processes from available data, the evolution of control processes, and how the relationship between generative dynamics, variability, and the final form interact to determine the evolution of the biological object. Two central projects in our lab are using comparative transcriptome profiling of time-series to uncover the architecture of temporal control in yeast and using computational analysis of non-coding RNAs to understand the evolution of sub-cellular processes in neurons.

Since 2007, Jim Eberwine (Pharm) and I have been engaged in multiple joint projects concerning genomics of cell differentiation and cell diversity. Our labs collaborate in all kinds of projects where we bounce ideas off each other, design and carryout experiments together, and design analysis of data together. Many of the projects described below, especially in neuroscience are joint projects between our two labs.

In addition to these theoretical problems, we work on a wide range of collaborative projects and computational biology projects. Currently, these collaborations involve molecular control of neurons, functional prediction of sequence elements for genes involved in synaptic transmission, novel technologies for functional genomics, statistical analysis of whole-genome expression profiling, as well as software engineering bioinformatics analysis platforms. We employ a variety of techniques including discrete algorithms,simulations, statistical learning, dynamical systems and algebraic geometry, molecular biology, functional genomics, and single-cell genomics.



Koretzky Laboratory

Type: Laboratory

Summary:

Our laboratory makes use of cell-free biochemical systems, model cell lines, and whole animals which have been genetically manipulated to probe various signal transduction pathways. Over the past several years we have become particularly interested in the regulation and integration of second messenger cascades by adapter molecules, those proteins which possess no intrinsic enzymatic properties, but which function by bridging protein-protein interactions.



Laboratory for Research on the Structure of Matter

Type: Center

Summary:

The Laboratory for Research on the Structure of Matter, the LRSM, is the center for materials research at the University of Pennsylvania. It was established in 1960 as one of the first interdisciplinary academic Materials Research Laboratories in the nation. The center has been funded continuously, first by the Advanced Research Projects Agency (ARPA), and since 1972, by the National Science Foundation’s Division of Materials Research (NSF-DMR). From 1972-95 NSF support was under the aegis of the MRL program, and from 1996, the LRSM was supported by the NSF as a Materials Research Science and Engineering Center, MRSEC.



Laboratory for Structural, Physiologic and Functional Imaging (LSPFI)

Type: Laboratory

Summary:

Research of the Laboratory for Structural, Physiologic and Functional Imaging (LSPFI) is aimed at quantitatively characterizing tissue properties and their relationship to physiology and function by means of spatially resolved magnetic resonance in humans. The laboratory is almost entirely funded by grants from the National Institutes of Health and involves intra- and extramural collaborations with a wide range of specialties, including neurology, psychiatry, cardiology, endocrinology, neonatology, hematology, craniofacial surgery, and orthopedics.

A major focus of LSPFI’s research is toward development of methods for the study of oxygen consumption, with a particular emphasis on neurometabolism, and the application of these methods to the study of degenerative and acquired neurovascular disease such as obstructive sleep apnea.

A further line of work focuses on methods for quantification of systemic vascular disease via functional MRI-based techniques including time-resolved blood flow, vascular compliance and dynamic venous blood oximetry. Applications of these methods currently in progress target the peripheral and central vascular system in preclinical vascular disease, such as in subjects exposed to aerosols from e-cigarette use and other lifestyle related conditions. An ongoing project resorting to similar methodology is directed toward the study of placental metabolism via T2-based quantification of oxygen saturation in maternal and fetal circulation.

The laboratory is also involved in ongoing methods development and reduction to practice with translation to the clinic of new quantitative solid-state proton and phosphorus MRI techniques for the study of bone matrix and mineral properties and their application to the evaluation of degenerative bone disease and treatment assessment. The use of solid-state imaging is also explored toward conception of a method for constructing cranial models as surgical aids to evaluate pediatric patients with craniosynostosis and for selectively imaging myelin in the CNS in view of possible applications in white matter disorders.

LSPFI is also active in the further development of methods for quantitative assessment of metabolic and degenerative skeletal disorders by means of image-based computational biomechanics, with the longer-term goal of creating orthopedic applications of high-resolution structural imaging, including patient-specific hip fracture prediction involving generation of high-resolution 3D anatomical models.



Laboratory of Infectious Diseases & Immunology

Type: Laboratory

Summary:

Research programs within the Laboratory of Infectious Diseases & Immunology are focused on understanding fundamental mechanisms of disease, pathogen-host interactions, zoonotic and emerging infections, and immunological responses for controlling disease. Our research programs involve diverse pathogens and our faculty are dedicated to offering state-of-the-art training for veterinary students, graduate students, residents, and post-doctoral fellows, in preparation for careers in veterinary medicine and the biomedical sciences.



Laboratory of Pathology & Toxicology

Type: Laboratory

Summary:

The faculty members in the Laboratory of Pathology and Toxicology have a wide range of interests in diagnostic anatomic, clinical, and toxicological pathology, and clinical and basic research. Supporting the bustling diagnostic services, cases provide a rich resource for generating hypotheses and investigating clinically relevant disease in veterinary and human medicine. The laboratory is also home to Avian Medicine & Pathology, which provides diagnostic service to the state and regional poultry agricultural industry.



Laboratory of Rare Lung Diseases

Type: Laboratory



Laufer Laboratory

Type: Laboratory

Summary:

Research Summary

Major histocomatibility complex (MHC) class II molecules are required for the normal development in the thymus of CD4+ T cells and function to present peptide antigens to those CD4 cells in the periphery.

The distribution of class II molecules is limited to thymic epithelial cells-where they are required for the positive and negative selection of CD4+ T cells-and in the periphery where they are required for the survival and activation of those T cells. We have developed a series of transgenic mice with restricted expression of the MHC class II molecule, I-Ab, and used them to investigate the requirement for different populations of antigen presenting cells in the thymic selection, peripheral activation, and tolerance of CD4+ T cells. Our most well studied model is the K14 mouse in which MHC molecules are restricted to thymic cortical epithelium-both thymic medullary epithelium and bone marrow-derived cells are class II negative. Positive selection of CD4+ T cells does occur in the K14 thymus; however, clonal deletion of autoreactive thymocytes can not be detected. Thus, K14 CD4 cells proliferate to I-Ab-positive APC in vitro and cause graft-versus-host disease when injected into MHC-identical hosts. Our current studies are directed toward understanding the peptide specificity, function, and pathologic potential of these autoreactive T cells:

1) Examination of a series of K14-derived autoreactive T hybridomas demonstrates that the autoreactive population of CD4 cells is polyclonal; however, we are beginning to identify the individual peptides responsible for stimulating the autoreactive response. To better understand the thymic selection processes in both K14 and wildtype thymi, we have also derived TCR transgenics from two of the hybrids and have begun to analyze the thymic development and peripheral function of autoreactive TCR transgenic CD4+ T cells in both K14 and wildtype mice of various haplotypes, including NOD, the diabetogenic genotype.

2) Development of autoimmunity: Adoptive transfer systems are being utilized to tease apart the T cell and target-organ abnormalities that must be present to initiate an autoimmune disease. Disease models include graft-versus-host disease, Herpes simplex keratitis, and Type I diabetes.

3) Requirement for MHC class II in other antigen presenting populations. Our newest transgenics utilize the mb-1 and CD11c promoters to reexpress class II molecules in the B cells and dendritic cells, respectively, of class II-deficient mice. Studies will be directed towards understanding how limiting the expression of Class II molecules alters the positive and negative selection, peripheral survival, and peripheral survival and effector function of CD4+ T cells.



Lazar Laboratory

Type: Laboratory

Summary:

The Lazar laboratory is studying the transcriptional and epigenomic regulation of metabolism. We are particularly focused on the role played by nuclear receptors (NRs). In the absence of ligand, NRs bind to DNA and function as potent transcriptional repressors by recruiting corepressor complexes that include the chromatin modulating enzyme histone deacetylase 3 (HDAC3). We are studying the tissue-specific and physiological roles of the corepressor complexes using by combining genomic, genetic, proteomic, and bioinformatics, and metabolic phenotyping approaches. We are especially interested in the circadian NR Rev-erb alpha, which utilizes the corepressor complex to potently repress transcription. Rev-erb alpha is a key repressive component of the circadian clock that senses heme levels to coordinate metabolism and biological rhythms. We are also studying PPAR gamma, a nuclear receptor that is a master regulator of adipocyte (fat cell) differentiation. Ligands for PPAR gamma have potent antidiabetic activity, and thus PPAR gamma represents a key transcriptional link between obesity and diabetes. The molecular, cellular, and integrative biology of these factors are being studied in mouse and human cell lines as well as in mouse knockin and knockout models. We also have discovered resistin, a novel hormone and target of PPAR gamma that is made and secreted by fat cells in rodents and by macrophages in humans. We have demonstrated that resistin regulates insulin responsiveness, and are now using mice humanized for resistin to test the hypothesis that resistin links metabolism to inflammation in human metabolic diseases.



Lee Laboratory

Type: Laboratory



Leonard Davis Institute of Health Economics

Type: Institute

Summary:

The Center for Health Incentives and Behavioral Economics was founded within the Leonard Davis Institute of Health Economics (LDI) at the University of Pennsylvania in 2008. LDI was established over forty years prior, in 1967, just two years after Congress enacted Medicare. The Institute was created to fill fundamental gaps in the evidence base that could inform policies critical to the financing and management of the nation’s increasingly costly and complex health care system. Today, LDI is considered one of the world’s leading university-based programs of its kind.

LDI and its Senior Fellows are among the pioneers in interdisciplinary health services research and have helped guide health policies at all levels of government and the private sector. More than 200 LDI Senior Fellows, including many CHIBE faculty, work to improve the health of the public through studies on the medical, economic, and social issues that influence how health care is organized, financed, managed, and delivered.

LDI is one of the first university programs to successfully cultivate collaborative scholarship among typically disparate disciplines. LDI is a cooperative venture among Penn’s health professions, business, and communications schools (Medicine, Wharton, Nursing, Dental Medicine, Law School, and Annenberg School for Communication) and the Children’s Hospital of Philadelphia, with linkages to other Penn schools, including Arts & Sciences, Education, Social Policy and Practice, and Veterinary Medicine.



Levine Laboratory

Type: Laboratory

Summary:

Dr. Levine’s basic science research is focused on defining the role that histone deactylases (HDACs) and heat shock proteins (hsps) play in tolerance of renal ischemia-reperfusion, work that is now funded by the NIH. This work has demonstrated significant renal function protection via HDAC inhibition by drug and by gene knockout which has also been associated with substantial diminution of fibrosis after injury. Further work is investigating which specific HDAC pathways are involved and determining if the site of action is on the kidney or the inflammatory cascade. Additional directions of this work are defining the role that hsps play in renal ischemic damage and whether the expression of hsps is beneficial or detrimental to renal ischemic recovery. Additional work is investigating the role of gender and hormone milieu on the response to renal ischemic injury. Dr. Levine has additional collaborative basic science studies investigating the role of costimulation blockade and cytokine pathway manipulation in rejection or tolerance of limb transplantation in murine models, work that is being initiated with funding from the Department of Defense and is initiated in collaboration with Dr Wayne Hancock and Dr Scott Levin. Additional collaborative work with the Hancock laboratory involves the effects of typical immunosuppression strategies on human regulatory T cells (Treg) after transplantation.



Live Cell Imaging Core

Type: Core Laboratory

Summary:

The Penn Dental Medicine Live Cell Imaging Core features a Nikon A1R Confocal Microscope, that includes the following specifications and applications.
-- Transmitted light, DIC and epifluorescence (Dapi, FITC, TRITC filters)
-- Objectives: 20x Dry, 40x Dry, 60x water, 100x oil
-- Fully automated XYZ scanning stage — Piezo Z stage insert for high speed image capture when using resonance scanner; Perfect Focus System, allowing for accurate stage reposition over timed series events.
-- Environmental chamber — Adjustable CO2 percentage and temperature with constant humidity; Accommodates 35 mm glass bottom culture dishes, 30×60mm chamber slides and 25×75mm glass slides.
-- Scan Heads for Image capture — Galvo (up to 4 fps (512×512); Resonance 30 fps (512×512 up tp 230 fps (512×64)
-- Stage — Fully automated XYZ scanning; Piezo Z stage insert for high speed image capture with resonance scanner; Perfect Focus System, allowing accurate stage reposition over a time series.
-- 4 Laser lines with filter configuration
-- Detectors — 4- Dedicated PMT for laser lines; 1-DIC PMT; DUS Spectral detector- 32 channels of detection over the 400nm-750mn. Spectral resolution adjusted to 2.5nm, 6nm and 10nm channel width.
-- Image Analysis — Nikon NIS Elements software; Additional Elements Software Workstation
-- Examples of Applications — Live cell (GFP translocation, Phagocytic uptake, LPS induced toxicity, Spectral profiling of inclusion bodies, Bimolecular fluorescence complementation) and Fixed (4-color imaging, Whole retina mounts, Protein co-localization, 3D targeted protein expression, FRET)



Lopez Laboratory

Type: Laboratory

Summary:

We study the intricate interactions between respiratory viruses, such as parainfluenza and respiratory synctial virus, and the lung innate immune system. We seek to identify viral and cellular factors that drive the development of effective antiviral responses able to control virus replication and dissemination. Our long-term goals are to identify potent viral molecular motifs that trigger the host immune response and to harnness them as adjuvants for vaccination. We are also interested in discovering new determinants of virus pathogenesis that could be targeted to minimize acute and chronic post-viral disease.



Luning Prak Laboratory

Type: Laboratory

Summary:

B cells produce antibodies and are important for innate and adaptive immunity. B cells that are improperly regulated can also cause or contribute to autoimmunity. Our major research interest is in defining B cell tolerance checkpoint defects in mouse models and patients with autoimmune diseases. B cells with a functional antibody can undergo further rearrangement, a process termed receptor editing. Receptor editing is a significant mechanism for central (early) B cell tolerance. Recent work from our lab demonstrates lower levels of editing in approximately 30% of patients with lupus and 30% of patients with type 1 diabetes, as well as in mouse models of these diseases. These findings suggest that a significant proportion of patients with different autoimmune diseases have defects in early B cell tolerance, and may provide insights into which patients will respond best to B cell targeted therapy.



Mahoney Institute for Neurosciences

Type: Institute

Summary:

Founded as the Institute of Neurological Sciences in 1953 by the visionary professor of Anatomy, Dr. Louis Flexner, our Institute was renamed in 1985 to reflect the keen interest and support that corporate magnate David Mahoney brought to neuroscience. Throughout our history, we have emphasized and nurtured the idea that major advances in brain research would require the expertise, dedication, and cooperation of scientists from many fields of research. Once a novel approach, such cross-campus, cross-disciplinary research and training have become the template for neuroscience at academic institutions around the world. Today, our scientists study cellular and molecular aspects of the brain; development, regeneration, and plasticity; systems neuroscience; behavior and cognition; the pathology of brain disease; and computational neuroscience. Our ranks include over 150 faculty from 32 departments in six schools, including Arts and Sciences, Dental Medicine, Engineering and Applied Sciences, Medicine, Nursing, Veterinary Medicine, and The Children's Hospital of Philadelphia. We continue to forge ahead with the spirit that has put the Institute at the forefront of neuroscience research and training since its founding.

MINS founded and continues to provide substantial support for the Neuroscience Graduate Group (NGG), Penn's award-winning doctoral program in neuroscience.

MINS also is closely affiliated with the Penn Medicine Neuroscience Center (PMNC), a more clinically oriented Center focused on understanding and treating diseases of the brain, spine, and peripheral nervous system.



Mari Lowe Center for Comparative Oncology Research

Type: Center

Summary:

The Center’s mission is to develop a multidisciplinary program in oncology that exploits small animal spontaneous tumor models for use in understanding basic mechanisms of cancers and their treatment.

This program is envisioned to also develop diagnostic and treatment modalities beneficial to both animal and human patients.

Components of the program include basic, translational, and clinical research activities, and development of training programs in oncology. Members of MLCCO represent all four departments of the School of Veterinary Medicine. The Mari Lowe Center closely collaborates with the colleagues from the Abramson Cancer Center of the University of Pennsylvania and Comparative Oncology Research Group.



Marks Laboratory

Type: Laboratory

Summary:

Eukaryotic cells are compartmentalized into distinct membrane-bound organelles and vesicular structures, each with its own characteristic function and set of protein constituents. Work in my laboratory is focused on understanding how integral membrane protein complexes are assembled and sorted to the appropriate compartments within the late secretory and endocytic pathways, how sorting and assembly contribute to the biogenesis of specific organelles in several cell types, how these processes impact biological function in the pigmentary, blood clotting, and immune systems, and how they are thwarted by generally rare genetic diseases.

Our primary focus over the past 18 years has been on melanosomes of pigmented cells. Melanosomes are unique lysosome-related organelles present only in cells that make melanin, the major synthesized pigment in mammals. Genetic defects in melanosome constituents or in their delivery to nascent melanosomes result in ocular or oculocutaneous albinism, characterized by lack of pigmentation in the eyes and or skin and concomitant visual impairment and susceptibility to skin and ocular cancers. Melanosomes are among a number of tissue-specific lysosome-related organelles that are malformed and dysfunctional in a group of rare heritable disorders, including Hermansky-Pudlak and Chediak-Higashi syndromes, and pigment cell-specific proteins that localize to melanosomes are targets for the immune system in patients with melanoma. In an effort to understand the molecular basis of these diseases, we are dissecting the molecular mechanisms that regulate how different stage melanosomes are formed and integrated with the endosomal pathway. We use biochemical, morphological, and genetic approaches to follow the fates of melanosome-specific and ubiquitous endosomal and lysosomal proteins within pigment cells from normal individuals or mice and disease models. Using these approaches, we are (1) outlining protein transport pathways that lead to the formation of these unusual organelles, (2) dissecting biochemical pathways that lead to their morphogenesis, and (3) defining how these processes are subverted by genetic disease. Current efforts focus on how factors that are deficient in patients and mouse models of the genetic disease, Hermansky-Pudlak syndrome, impact melanosome biogenesis. We are particularly interested in how these factors contribute to the formation and dynamics of tubular connections between endosomes and maturing melanosomes that facilitate cargo transport, as well as the formation of retrograde membrane carriers that retrieve unneeded proteins from melanosomes.

Because genetic diseases like Hermansky-Pudlak syndrome affect multiple organ systems, we study how similar sorting processes involved in melanosome biogenesis influence other organelles in different cell types. The first involves lysosome-related organelles in platelets called dense granules and alpha granules. When platelets are activated at sites of blood vessel damage, the contents of these granules are released, leading to optimal blood clot formation and platelet activation. Like melanosomes, dense granules are malformed in Hermansky-Pudlak syndrome, and in collaboration with the Poncz, Stalker and French laboratories at CHOP and Penn we are studying how dense granule contents are delivered within platelets and their precursors (megakaryocytes). Studies in collaboration with the Poncz and French labs also address the contents and secretion of alpha granules and their disruption in human bleeding disorders.
The second cellular system is the dendritic cell, a master regulator of T cell-mediated immunity. Patients with Hermansky-Pudlak syndrome type 2 have recurrent bacterial infections, and we have found that this is at least in part due to defects in the way that dendritic cells sense bacterial infection. Normally, ingested bacteria trigger signaling by innate immune receptors present on the membrane enclosing the bacteria (the phagosome); this signaling is defective in dendritic cells from a mouse model of the disease due to impaired recruitment of the receptors and their signaling platforms. Ongoing studies aim to dissect how phagosome membrane dynamics normally lead to signaling and how this is altered in disease states.

Finally, melanosome precursors in pigment cells harbor intrernal fibrils upon which melanins deposit in later stages. The main component of these fibrils is a pigment cell-specific protein, PMEL. Fibrils formed by PMEL in vitro display features common with amyloid formed in disease states such as Alzheimer and Parkinson diseases. By dissecting how PMEL forms amyloid under physiological conditions, we hope to determine how the formation of "good" and "bad" amyloid differs and thus how the formation of "bad" amyloid might be controlled.



Mass Spectrometry Facility (Penn)

Type: Core Laboratory

Summary:

"The Mass Spectrometry Facility is part of the Shared Instrument Facilities of the Department of Chemistry. It provides low and high resolution mass spectra to Penn Chemistry and to other research groups throughout the university community for the determination of elemental composition and purity of a wide variety of compounds."

Investigators interested in using the facility are encouraged to call and discuss their project. Usage fees will be quoted at this time. Fees depend upon the instrument involved in the analysis, complexity of the project, training, etc.



Mass Spectrometry Molecular Profiling Core (Penn)

Type: Core Laboratory

Summary:

This core provides sophisticated analytical services based on liquid chromatography-mass spectrometry.



Medical Imaging Processing Group

Type: Laboratory

Summary:

MIPG is one of the oldest and longest active research groups in the world engaged in research on the processing, visualization, and analysis of medical images and the medical and clinical applications of these computerized methods. It was formed in the Department of Computer Science, (then) State University of New York, Buffalo, in 1976 by Gabor Herman. Udupa joined the group in 1978. The whole group moved to University of Pennsylvania, its current home, in 1981. Udupa was appointed its director in 1991.



Meta-Analyses of Glucose and Insulin-related traits Consortium

Type: Consortium

Summary:

MAGIC (the Meta-Analyses of Glucose and Insulin-related traits Consortium) represents a collaborative effort to combine data from multiple GWAS to identify additional loci that impact on glycemic and metabolic traits.

MAGIC investigators have initially studied fasting glucose, fasting insulin, 2h glucose and HBA1c, as well as performed meta-analysis of more sophisticated measures of insulin secretion and sensitivity. Through these efforts, dozens of loci influencing these traits have been idenfified, a subset of which also influence risk of type 2 diabetes.



Metabolic Tracer Resource (Penn)

Type: Core Laboratory

Summary:

The Metabolic Tracer Resource aims to provide consultation and services to IDOM investigators interested in using stable isotope labeled tracers (typically carbon-13 or deuterium) in cell-based, animal and human metabolic studies.

The Resource offers analysis of stable isotope enrichment of glucose, glycerol, fatty acids and amino acids in samples from metabolic tracer studies. These data can then be used to calculate rates of turnover, synthesis, production or recycling.

The Resource is currently located in room 12-171A Translational Research Center (TRC).



Metabolomic Core (CHOP)

Type: Core Laboratory

Summary:

Mission and Goals:

The mission of the Metabolomic Core at CHOP (MC@CHOP) is to provide analytical services to advance understanding of metabolism in health and disease states. Our state-of-the-art research facility allow investigators to carefully study the relationship between metabolome, fluxome and disease states such as cancer, diabetes, inborn errors of metabolism, metabolic syndrome, urea cycle defects, traumatic brain injury, drug addiction, sleep disorder, etc.

Furthermore, MC@CHOP provides the analytical and theoretical wherewithal to investigate the impact of drugs on metabolism as well as the potential benefits and risks of a given drug treatment.



Metabolomics Core (Penn)

Type: Core Laboratory

Summary:

Core Aims:
1) To develop and validate metabolomic methods and data analysis software, including flux analysis
2) To engage in collaborations that result in major advances in diabetes research
3) To provide high quality routine metabolomic services

Core services:
1) Quantitation of selected water-soluble metabolites, fatty acids, and lipids
2) Quantitation of metabolic fluxes using stable isotope tracers
3) Identification of novel metabolites involved in diabetes pathophysoiology

A typical metabolomics project involves appropriate sample preparation and handling, metabolite measurement at the core, and data analysis and interpretation. Interested users are encouraged to contact core staff to discuss the scientific objectives and experimental design before initiating a project.



MicroCT Imaging Core

Type: Core Laboratory

Summary:

In the Penn Center for Musculoskeletal Disorders (PCMD), µCT imaging has been part of a broader “Imaging Core (IC)”. In the current proposal, due to a dramatically increased demand amongst our investigators for access to specific µCT modalities and specialized µCT imaging techniques, the need to develop new µCT imaging and analysis methods, and the desire to progress more deeply into this modality rather than more broadly across modalities for our community, a focused µCT Imaging Core (µCTIC) will replace the previous broad IC. However, in recognition of the importance of other imaging modalities, access for our investigators to these modalities (e.g., MRI, ultrasound and particularly for small animals) will be available through the existing Core facilities on campus and supported by a new intellectual guidance and funding mechanism as described in the Administrative Core. It is important to note that the proposed µCTIC does not exist for our members without this P30-supported PCMD. The overall objective of the µCTIC is to offer a wide range of µCT imaging approaches to evaluate musculoskeletal tissue injury and repair, and to provide training and consultation for new projects and collaborations utilizing these assays. Importantly, the µCTIC of the PCMD will have its home in Stemmler Hall, the same building as the other two Resource Cores and the Administrative Core, defining a clear home for the PCMD overall. The Specific Aims for the µCTIC are:

Aim 1: To provide guidance and expertise on the use of µCT imaging for musculoskeletal research through educational enrichment programs and one-on-one interactions.
Aim 2: To provide a range of µCT imaging resources, expertise, and services for the study of the structure, function and physiology of the musculoskeletal system in laboratory animals and humans.
Aim 3: To develop new µCT imaging-based techniques that will be applicable to musculoskeletal research.
Aim 4: To provide funding for the development of new projects and collaborations and to develop preliminary and/or feasibility data for investigators.



Microbial Culture and Metabolomics Core

Type: Core Laboratory

Summary:

The Microbial Culture and Metabolomics Core features facilities and equipment for the aerobic and anaerobic culture of microbial species in both batch and continuous systems as well as services for both targeted and untargeted metabolomics. The core offers training and usage for all equipment as well as consultation towards experimental design and method development of microbial culture studies. Additionally, the core offers anaerobic culture services.

Equipment and Services Available:
Anaerobic Chamber (Type B, Coy Labs)
Automated Biorector (BioFlo 320, Eppendorf)
Waters Acquity uPLC System with a QDa single quadropole mass detector

Metabolomics:
Targeted Metabolomics – bile acids, short chain fatty acids, amino acids, $40/each or $80/all
Untargeted metabolomics with Metabolon, 5% Discount



Microbial Culture and Metabolomics Core (Penn/CHOP)

Type: Core Laboratory

Summary:

The Microbial Culture and Metabolomics Core features facilities and equipment for the aerobic and anaerobic culture of microbial species in both batch and continuous systems as well as services for targeted metabolomics. The core offers training and usage for all of these equipment as well as consultation towards experimental design and method development of microbial culture studies. Additionally, the core offers anaerobic culture services; working with the researcher, the core will purchase, receive, and revive strains from commercial culture collections (i.e., ATCC, DSMZ). The core will prepare glycerol stocks, liquid cultures, or gavage-ready suspensions for inoculation of animals with pure or define-mixed microbial communities.



Microbiome Human Intervention Core (Penn/CHOP)

Type: Core Laboratory

Summary:

The Human Intervention Core offers a wide array of services to assist with the design and implementation of microbiome studies. The core can assist with longitudinal studies as well as pilot studies. Pilot studies can be rapidly implemented with human intervention core staff, project managers and research coordinators, to conduct these studies."

"Please fill out this form and send to: nessel@mail.med.upenn.edu and uroy@mail.med.upenn.edu



Microscopy Core (Penn)

Type: Core Laboratory



Mixed Methods Research Lab (Penn)

Type: Core Laboratory

Summary:

"The goal of the Mixed Methods Research Lab (MMRL) in the Department of Family Medicine and Community Health is to foster the use of qualitative and mixed methods research methodologies with a focus on integrating key stakeholder perspectives and goals into research designs. The MMRL works with investigators to provide conceptual and technical support for community based and clinical research questions. Qualitative, mixed methods and action research are uniquely suited to capture the contextual, socio-cultural, and experiential factors that contribute to health disparities.

The MMRL offers consultation, training, and staff support at all stages of the research process, including project and proposal conception, instrument development, budget development, data collection, data management, analysis, and publication/dissemination."

MMRL staff has expertise in a variety of traditional and innovative data collection methods including observation, freelisting, individual interviews, and focus groups. The MMRL primarily uses a modified grounded theory approach to analyzing data. Grounded theory is a methodology that involves iterative development of theories about what is occurring in the data as they are collected. The process develops themes that emerge “from the ground,” based on responses to the open-ended questions developed for the proposed study.



Molecular Cardiology Research Center

Type: Center

Summary:

The Molecular Cardiology Research Center (MCRC) was established in 1999 and is devoted to coordinating molecular and cellular research in cardiovascular biology and generating transformational discoveries that directly impact cardiovascular health and disease. The MCRC supports the Penn Cardiovascular Institute’s mission of promoting multi-disciplinary and translational cardiovascular research across schools, institutes, centers, departments and divisions at the University of Pennsylvania.



Molecular Pathology & Imaging Core

Type: Core Laboratory

Summary:

The MPIC provides histological services, equipment usage, and technical expertise to digestive and liver research projects.

It is funded by the Center for Molecular Studies in Digestive and Liver Diseases (NIH P30 DK050306) and the Program Projects "Mechanisms of Esophageal Carcinogenesis" (P01 CA098101) and "Integrative Metabolic Adaptations to Environmental and Nutritional Challenge" (NIH P01 DK049210).



Molecular Profiling Facility (Penn)

Type: Core Laboratory

Summary:

The Penn Molecular Profiling Facility provides instrumentation and expertise for DNA and RNA profiling. Microarrays and other highly parallel technologies provide the means for measuring the identity and abundance of DNA and RNA for targeted genes, or the whole genome, in a biological sample. The Facility offers a range of cost and performance options suitable for a variety of experimental questions. Molecular assays are critical to many aspects of basic, clinical, and population research, including molecular stratification of patients entering clinical protocols, molecular epidemiological and pharmacogenetic studies, as well as longitudinal follow-up of patients in clinical investigations.

Since molecular technologies and instrumentation are evolving rapidly, the centralization of molecular testing services within this core facilitates utilization of leading-edge molecular analyses by the investigators. Because some assays are used for clinical decisions during clinical trials, tests are meticulously designed and performed with strict attention to the prevention of polymerase chain reaction (PCR) contamination.

The Facility is a fully equipped molecular biology laboratory staffed by experienced individuals in developing and performing molecular biological assays. While the Facility staff performs most of the assays, investigator-performed studies are actively encouraged through the sharing of Facility procedures, individualized training of investigators or their technical staff, and use of core equipment.

The Facility Director and the Technical Director are available to talk with investigators to explore how the services of the facility can enhance or design their specific research projects. We invite investigators to meet with us in the planning stages of their studies, especially before grant submissions, to discuss services that the core can provide, such as budget information and a description of the core for the resources section of the grant, as well as to plan collection and handling of the specimens for the study. The Facility is happy to custom design assays to fit an investigator's needs.



Molecular Profiling Facility, Bioinformatics (Penn)

Type: Core Laboratory

Summary:

The bioinformatics staff of the Penn Genomic Analysis Core is available to provide experimental design and analyical services to the basic and biomedical research community. Our services include support for Next-Gen Sequencing data as well as all platforms available in the core. We provide services as one-on-one meetings with customized approaches determined by the experimental design and goals of the investigator. We translate experimental goals into statistical, analytical and visual prioritization of genes and pathways.



Molecular Screening and Protein Expression Facility (Wistar)

Type: Core Laboratory

Summary:

The Molecular Screening and Protein Expression Shared Resource fosters collaboration by providing expertise in biochemical and cell-based assay development for high-throughput screening and compound profiling. Such assays enable researchers to identify small molecule compounds which interact with a target protein of interest. These compounds can then be used as tools to further study the target proteins function and signaling pathways in cells. The facility maintains a small molecule library of ~100,000 drug-like small molecules for high-throughput screening and provides access to liquid handling robotics and a multilabel plate reader. In addition, the facility also provides access to Biacore T200 SPR instrument for label-free binding kinetics and a high-content screening system. Guidance is provided for target justification, assay development, miniaturization, robotic automation, and adaptation to HTS-compatible, high-density microplate (384-well) formats. The facility provides production of recombinant proteins in insect cell systems and affinity purification of recombinant proteins upon request. The facility also maintains glycerol stocks of shRNA libraries, which can be accessed by investigators for use in target validation studies.
Through our partnership with The Gene Editing Institute at Christiana Care, Wistar researchers have access to gene editing (CRISPR/Cas9) services.

The Wistar Molecular Screening Facility was developed with support from the Commonwealth of Pennsylvania Department of Community and Economic Development Keystone Innovation Zone initiative, The F. M. Kirby Foundation, The CLAWS Foundation, The Florence & Daniel Green Foundation, The McClean Contributionship, From The Heart Foundation, the Noreen O’Neill Foundation for Melanoma Research, NIH shared instrumentation grants, and an NCI Cancer Center Support Grant.



Monell Chemical Senses Center

Type: Center

Summary:

"The Monell Center is the world’s only independent, non-profit scientific institute dedicated to interdisciplinary basic research on the senses of taste and smell.

At Monell, world-class scientists are unlocking some of the most fundamental mysteries of what makes us human. How do we use our chemical senses to communicate? What are the cellular underpinnings of taste and smell that contribute to the difference between lifelong health and chronic disease? How do our chemical senses shape human nutrition? Which genes are responsible?

Monell’s long-standing interdisciplinary model was itself a scientific experiment when the Center was founded more than 40 years ago. Today, Monell remains a nexus where outstanding scientists from many disciplines work together to focus on a common objective: understanding the mechanisms and functions of taste and smell and how these senses relate to human health. The Center’s integrated research approaches range from basic molecular biology to behavioral neuroscience, from cellular biology to comparative ecology, from analytical chemistry to clinical work with human patients.

Monell scientists are at the forefront of discovery, exploring the senses of taste and smell in order to answer pressing questions about health, behavior, and the environment that we could not even foresee a decade ago."



Mood Disorders Treatment Center

Type: Center

Summary:

Overview
The Mood Disorders Treatment Center within the University of Pennsylvania's Department of Psychiatry provides comprehensive, state-of-the-art assessments and treatment for individuals with mood and anxiety disorders, including: bipolar disorder, major depression, dysthymia, mood disorders secondary to medical conditions and anxiety disorders. The Treatment Center also addresses questions regarding the optimal management of mood disorders during pregnancy and the post-natal period.

About Mood Disorders
Mood disorders, including depression and bipolar disorder, are characterized by extreme mood states that cause great distress and which interfere with daily living. Depressed persons may feel persistently sad, distressed, and hopeless even though there is no reason for them to feel that way. People with bipolar disorder may experience abnormally high energy and an elevated sense of mood and self that interferes with their ability to make reasonable choices, as well as depressed periods. Mood disorders are common and treatable medical illnesses.

About the Treatment Center
Our Center is lead by nationally-renowned psychiatrists who specialize in the optimal treatment of complex mood disorders. With the goal of sustained remission of the disorder, our experts provide cutting edge consultation and treatment specifically tailored to meet the needs of each individual patient, utilizing across the board therapeutic options including psychotherapy, psychopharmacology and neuropsychiatric type interventions (electroconvulsive therapy (ECT), vagal nerve stimulation therapy (VNS) and repetitive transcranial magnetic stimulation (rTMS)).



Morrisey Lab

Type: Laboratory

Summary:

Our lab focuses on the developmental pathways and factors that are critical for building the cardiopulmonary system. Using a combination of mouse genetics, biochemistry, and genomic analysis, we seek to better understand how the lung and heart develop, how developmental pathways are disrupted in human cardiopulmonary disease, and whether such pathways and factors can be harnessed to promote pulmonary and cardiac regeneration in the adult.



Mouse Cardiovascular Phenotyping Core (Penn)

Type: Core Laboratory

Summary:

The Mouse Cardiovascular Physiology Core provides services to assess cardiovascular function in mouse models and to provide validated surgical models of heart and vascular disease in mice to assess genetic or therapeutic interventions. We will work with investigators to design and implement the study along with any associated grant applications, animal protocol submissions and manuscript preparation. While the central focus of the facility is cardiovascular research, the techniques employed are often useful to investigators in other fields. Our Core staff will work with you to assess your needs and provide the necessary technical training and scientific assistance in animal protocol preparation. The Core runs on a fee-for-service model. Accordingly, investigators will be responsible for the costs incurred for their projects and prior animal protocol approval by Penn IACUC.



NBIC Probe Facility (Penn)

Type: Core Laboratory

Summary:

The NBIC serves as an incubator for new probes of nanostructure behavior and associated instrumentation development. It is equipped with a suite of scanning probes, opto-electronic/transport tools, and optical probes that are so recently developed as not to be available on commercial instruments. The environment facilitates the development and refinement of new probe-based techniques.



Nano/Bio Interface Center

Type: Center

Summary:

Nano/Bio Interface Center at the University of Pennsylvania is a Nanoscale Science and Engineering Center bringing together researchers from the Schools of Engineering and Applied Science; Arts and Sciences; and Medicine. The NBIC exploits Penn's internationally recognized strengths in design of molecular function and quantification of individual molecules. The Center unites investigators from ten departments to provide, not only new directions for the life sciences, but also for engineering in a two-way flow essential to fully realizing the benefits of nano-biotechnology.



Nanoscale Characterization

Type: Core Laboratory

Summary:

The Nanoscale Characterization Facility (NCF) supports state-of-the-art tools for electron- and ion-beam analyses for Penn, as well as other university and industry users in the Philadelphia region. Our new facility comprises a suite of rooms specifically designed to host current and next-generation scanning electron, transmission electron and atomic force microscopes. The facility includes an integrated sample preparation laboratory with complete sample coating and plasma cleaning capabilities, as well as cryogenic TEM sample preparation equipment. A computer suite for offline image and data analysis and office and meeting space for staff and industrial users round out the facility in the Singh Center. The NCF also maintains an ion scattering laboratory featuring a 5.1 MeV ion accelerator for thin film characterization and ion implantation. This facility is located nearby in the adjacent Laboratory for Research on the Structure of Matter Building.



Natural Products Discovery Institute

Type: Institute



Neurobehavior Testing Core (Penn)

Type: Core Laboratory

Summary:

Although there have been major advances in Psychiatry and Neurology, less progress has been made toward understanding nervous system function, specifically the mechanisms underlying behavior. The Penn Medicine Neuroscience Center (PMNC), the Institute for Translational Medicine and Therapeutics (ITMAT), the Center for Sleep and Circadian Neurobiology (CSCN) and the Perelman School of Medicine(PSOM) established the Neurobehavior Testing Core (NTC) for behavioral phenotyping of mice. In addition to serving as a resource for neuroscience researchers, the NTC can be utilized by scientists in other disciplines who are interested in the behavioral consequences of other physiological (e.g., metabolic) disruption.

The NTC offers comprehensive testing of mouse models of disease and experimental compounds. Investigators can select from a broad range of assays that can be tailored to their specific interests. Our assays include tests for Learning and Memory, Circadian and home-cage activity monitoring, Affective disorder-related behaviors, Social interaction, Sensory and Motor function, Drug addiction-related behaviors and electrophysiological recording. The NTC also provides consultation, assistance in writing protocols and data analysis. The NTC can train personnel from an investigator’s lab to perform experiments at a reduced cost. Please contact Dr. W. “Tim” O’Brien at obrienw@mail.med.upenn.edu or (215) 898-0476 to discuss how the Neurobehavior Testing Core could facilitate your research.



Neuroimaging & Neurocircuitry Core

Type: Core Laboratory

Summary:

The Neuroimaging and Neurocircuitry Core (NNC) enables the study of changes in brain circuitry which occur in people with IDD. The Core supports research in both patients and animal models by providing users the following state-of-the-art technologies.



Neuroimaging and Cognitive Core

Type: Core Laboratory

Summary:

The Neuroimaging and Cognitive Core (NICC) at the University of Pennsylvania’s Brain Behavior Laboratory aims to facilitate cutting-edge research in cognitive neuroscience through use of the Computerized Neurocognitive Battery (CNB) and neuroimaging. The CNB is comprised of a series of tests that have been applied in neuroimaging studies and can be used either in a scanner as part of a functional neuroimaging study or outside a scanner for measuring individual differences in performance. Tests measure accuracy and speed of performance in major domains of cognition, including executive-control functions (abstraction, attention, working memory), episodic memory (verbal, facial, spatial), complex cognitive processing (language reasoning, nonverbal reasoning, spatial processing), social cognition (emotion identification, emotion intensity differentiation, age differentiation) and sensorimotor and motor speed.



Neurons R Us (Penn)

Type: Core Laboratory

Summary:

Neurons R Us is a service center provided by the Penn Medicine Translational Neuroscience Center (PTNC) at the University of Pennsylvania. We have been supplying neurons for research to the Penn community for over 25 years. The center's Technical Director, Margie Maronski, won Penn's 2008 Models of Excellence award for her work providing outstanding cultures to Penn researchers.

Advantages of buying from us
• Low cost
• On campus
• Mouse and rat
• Hippocampus and neocortex - other tissues upon request
• Healthy, longer lasting cultures
• Provided in dishes, wells or in suspension; with or without glia
• Expert advice and troubleshooting
• "Made to order" cultures upon request, e.g. transgenics, other strains



Neuropsychiatry Section

Type: Center

Summary:

The Neuropsychiatry program of the University of Pennsylvania's Department of Psychiatry is devoted to the study of brain and behavior in health and disease. By integrating methodologies we aim to advance the understanding and treatment of complex brain disorders such as schizophrenia and related psychotic disorders.

We combine clinical assessment procedures with neurobehavioral measures, neuroimaging, electrophysiology and genomics. Clinical research is linked to basic research by using animal models and biomarkers. The research involves working with individuals and families over time to help understand changes and treatments. We are especially interested in factors that contribute to vulnerability to psychosis as well as those that add to resilience in young people.



Next-Generation Sequencing Core (Penn)

Type: Core Laboratory

Summary:

The NGSC offers ultra high throughput sequencing services for the PSOM research community. We offer library quality assessments, sequencing, and optional preliminary data analysis for a wide variety of experimental protocols including ChIP-seq, RNA-Seq, HITS-CLIP, miR-Seq, exome capture, and BIS-seq. We offer limited library preparation services, but can advise on library preparation techniques. We have two Illumina hiSeq2000s for large-scale sequencing and a MiSeq for sample evaluation or library testing. To get started, visit our website, create an account for yourself, then create a new experiment and we will contact you.



Nonhuman Primate Core

Type: Core Laboratory

Summary:

The Nonhuman Primate Core provides highly integrated clinical management and laboratory investigations using the non-human primate model of AIDS to CFAR investigators.

The Core, located at the Tulane National Primate Research Center (TNPRC) in Covington, LA, builds on the resources and mission of the TNPRC, which is, in part, to serve as a national resource and center of excellence for biomedical research using non-human primates. Thus, the Center has extensive experience facilitating the interaction of investigators at other institutions with the resources of the center. This includes a variety of centralized services as well as fully equipped laboratory space available to visiting investigators.

The Core acquires, houses, and cares for macaques used by CFAR members and is responsible for regulatory compliance and the daily clinical care of animals and animal procedures such as immunizations, treatments, collection of body fluids (blood, cerebrospinal fluid, saliva, etc.), bronchoalveolar lavage, endoscopies, surgery, biopsies, and real-time telemetry and video monitoring.

The laboratory component of the Core performs hematology, clinical chemistry, ova and parasite examination of feces, microbiology, and pathologic examination of all necropsies and biopsies performed on animals utilized in these studies. The Core also provides viral stocks, viral isolation, and advanced immunology procedures and services, including polychromatic flow cytometry, molecular pathology (PCR, RT-PCR, in situ hybridization) and multicolor fluorescent confocal microscopy and image analysis. The TNPRC has state of the art imaging and analysis equipment, including digital slide scanners, fluorescent and confocal microscopes, high-speed cell sorters, and PCR machines.

In addition to its mission of service to the Penn CFAR, the NHP Core also serves to stimulate the translation of bench-based findings into animal experimentation, a necessary key step prior to application of any results to humans. One major tool in this effort is a pilot research program using non-human primates offered in conjunction with the Developmental Core. The Call for Proposals for the Nonhuman Pilot Research Program is usually offered once a year. The pilot program is open to all Penn CFAR investigators at Penn, CHOP, and Wistar.



Nucleic Acid Technologies Core- Gene Therapy Group

Type: Core Laboratory

Summary:

The NAT Core at GTP utilizes cutting-edge sequencing technologies to provide full service for a wide variety of Next-Generation Sequencing (NGS) applications.



Ocular Viral Vector Core (Penn)

Type: Core Laboratory

Summary:

The CAROT Research Vector Core is a facility that specializes in generating recombinant Adeno-Associated Virus (AAV) vectors for applications in retinal and ophthalmic research. The main objective of the Core is to provide custom-made vectors for basic and translational research. The Core will guide investigators on selection of capsids, regulatory elements and other issues that may impact the results. The core can scale the size of the vector preparation according to the needs of the investigator. All vector lots undergo evaluation to assure purity and high quality. Dr. Shangzhen Zhou an internationally recognized leader in AAV vector production directs the core.



Ocular iPS Cell Core (Penn)

Type: Core Laboratory

Summary:

THE CAROT iPS Cell Core is focused on creating a biorepository of cells from individuals with inherited retinal degenerations and on using cells from the repository to establish induced pluripotent stem cell lines that can be differentiated into ocular- and retinal- specific lineages. The use of patient derived iPSC allows the Core to create disease- and patient- specific personalized models of disease. A primary objective of the Core is to use patient iPSC-derived cell models for proof of concept studies and drug screening for new therapeutics. Additionally, the Core will provide training and guide investigators in the creation of iPSC lines and their differentiation into various retinal specific lineages. The Core can also provide liquid nitrogen storage of derived cells. The Core Director, Dr. Jeannette Bennicelli, is a cellular and molecular biologist with expertise in the derivation and manipulation of cell lines as well as design, construction, and testing of therapeutic AAV vectors.



Office of Clinical Research

Type: Center

Summary:

OCR provides education and training, develops policies and best practice processes, and leads quality improvement efforts in areas surrounding human subject research. We strive to assist in creating an interdisciplinary and collaborative research environment for Penn investigators, staff, and external institutional and industry partners.



Olena Jacenko Laboratory

Type: Laboratory



Outcomes Measurement Methods Core (Penn)

Type: Core Laboratory

Summary:

Mission:
The mission of the Outcomes Measurement Methods Core Program is to provide investigators, key personnel, and trainees with research collaboration, education, and consultation in the selection and development of measurement tools for translational and clinical research projects.

Initial consultations are provided free of charge. Cost recovery is required for follow-up consultations or long-term collaboration.

The OMMC is managed by the Center for Health Behavior Research (CHBR).



PENTACON

Type: Consortium

Summary:

The Personalized NSAID Therapeutics Consortium (PENTACON) is a group of 42 scientists from 22 institutions who have decided to test whether a paradigm for the personalization of drug treatment can be successfully developed. They have applied for funding through the National Institute of General Medical Sciences (NIGMS) GLUE grant mechanism.

PENTACON scientists approach the challenge of personalizing chronic drug therapy by focusing on a single class of drugs – nonsteroidal anti-inflammatory drugs (NSAIDs), initially exploring in detail what factors might contribute to variability in drug response and how that might be reflected by quantitative assays that might predict efficacy or risk.

This involves two major challenges; firstly, the attempt to integrate heterogeneous data – genomics, epigenomics, proteomics, lipidomics, imaging, metabolomics and microbiomics and secondly, the integration of such data from 5 systems – yeast, mammalian cells, zebrafish, mice and humans.

The null hypothesis is that harnessing such information will NOT allow us to provide incremental value to physicians as they decide whether to put a patient on an NSAID and if so which one, at what dose and for how long.

If this hypothesis is rejected for NSAIDs, it will afford a completely novel paradigm for the personalization of medicine.



Pancreatic Islet Cell Biology Core (Penn)

Type: Core Laboratory

Summary:

The objective of the Islet Cell Biology Core is to provide DRC members with state of the art support including experimental design, islet isolation, and performance of and/or training in an expansive range of assays for physiological and morphometric assessment of pancreatic islet function and growth. We also enlist unique expertise of newly interested faculty to adapt existing technologies to solve unique problems that cannot be addressed by standard methodologies. For example, new ties with our Physiology Department promise an expansion of consultation and services to study membrane biophysics critical for understanding normal and diseased islet cells.

Core Functions
Failure of insulin secreting pancreatic beta cells characterizes the progression of all forms of diabetes. The ICBC is thus positioned to contribute in a significant manner to the basic and translational research activities of the Institute of Diabetes, Obesity and Metabolism (IDOM) at the Perelman School of Medicine of the University of Pennsylvania. The ICBC has developed exceptional expertise in working with human and rodent pancreatic islet tissue, acquiring instrumentation and establishing procedures that are not readily available to the average laboratory.



Parker Institute for Cancer Immunotherapy

Type: Institute

Summary:

Penn is a founding partner of the Parker Institute for Cancer Immunotherapy, which unites six of the nation’s top medical schools and cancer centers around the shared aim of accelerating breakthroughs in cures for cancer through immunotherapy approaches. The effort is backed by as much as $250 million in support from the Parker Foundation, making it the largest single contribution ever made to the field of immunotherapy.



Parmacek Laboratory

Type: Laboratory

Summary:

The Parmacek laboratory has a longstanding interest in examining the molecular programs that regulate vascular smooth muscle cell and cardiac myocyte development and differentiation. Dr. Parmacek cloned and characterized members of the GATA-4/5/6 family of zinc finger transcription factors and used gene targeting techniques in mice to elucidate the distinct functions of GATA-4 and GATA-6 in the cardiovascular system. The Parmacek laboratory also used transgenic techniques to show that an SRF-dependent transcriptional program regulates vascular SMC differentiation.

More recently, the Parmacek Lab reported that myocardin is a critical SRF cofactor that regulates vascular smooth muscle cell differentiation and modulation of smooth muscle cell phenotype. These studies are relevant to understanding the molecular basis of angiogenesis and the pathophysiology of vascular proliferative syndromes including atherosclerosis.

In collaboration with other Penn cardiologists, Dr. Parmacek performs translational research studies focusing on stem cells and other novel agents that may be used to treat cardiovascular disease.



Pathology Clinical Service Center (Penn)

Type: Core Laboratory

Summary:

The mission of the Pathology Clinical Service Center (PCSC) is to promote and facilitate translational research by providing comprehensive blood and tissue-based services to investigators. Among these services are those that traditionally are only provided by Anatomic and Clinical Pathologists in the clinical setting. The Anatomic Division (PCSC-AP) specializes in the analysis of human bio-samples and offers histology, immunohistochemistry, immunofluorescence, in situ hybridization, tissue microarray construction, molecular analysis, digital imaging, multispectral image analysis and assay development. The Transfusion Medicine & Therapeutic Pathology Division (PSCS-TM&TP) encompasses the Apheresis and Infusion Clinic, the Stem Cell Lab, and the Blood Bank, and the Penn Medicine Blood Donation Center. The PCSC-TM&TP operates in compliance with FDA regulations, is accredited by the AABB and FACT, and specializes in the collection, processing, and re-infusion of cellular products, and offering mononuclear cell, whole blood, and plasma collections, elutriation, and infusion of intravenous medications under medical supervision. The Clinical Pathology Division (PCSC-CP) specializes in the analysis of blood and serum samples, including chemistry, microbiology, coagulation, hematology, immunology, and molecular pathology. In addition, PCSC can collect, store, analyze, and annotate research samples for IRB-approved projects.



Pathology Core Laboratories (CHOP)

Type: Core Laboratory

Summary:

The Pathology Core Laboratory at the Research Institute at Children's Hospital of Philadelphia unites several core pathology components in one facility. Path Core provides basic histopathology, research immunohistochemistry, tissue microarray, and laser capture microdissection services to researchers at Children's Hospital of Philadelphia and within the surrounding academic community. We offer a full range of histopathology services for both paraffin-embedded and frozen tissue samples including tissue processing, embedding, and cutting. We also perform most standard stains as well as immunohistochemistry, antibody workup, fluorescence, in situ hybridization and TUNEL. Tissue microarrays can be constructed and our staining services may be used on slides acquired from the arrays. Sophisticated imaging instrumentation is available for both bright field and fluorescent microscopy including whole slide scanning. We also host specialized software to analyze, manage, and store data on stained tissues and arrays.



Pathology Core- Gene Therapy Program

Type: Core Laboratory

Summary:

The Pathology Core provides one-stop shopping to GTP investigators for all histology-related work, ranging from tissue collection, processing and staining to microscopy and image analysis.



Paul F. Harron Jr. Lung Center

Type: Center

Summary:

The Harron Lung Center provides you with more leading-edge treatment options than any other lung program in the region.



Payne Laboratory

Type: Laboratory

Summary:

Pemphigus vulgaris (PV) is a potentially fatal disorder in which autoantibodies against desmosomal cell adhesion molecules known as desmogleins cause blistering of the skin and mucous membranes. Our laboratory is interested in better understanding pathogenic mechanisms in this model organ-specific autoimmune disease, from both the immunologic and cell biologic perspectives.

A fundamental question in organ-specific autoimmune disease is why the immune system breaks tolerance against only a limited number of self-antigens. We have cloned B cell repertoires from PV patients to understand how they developed desmoglein autoreactivity. We have identified shared VH1-46 gene usage in anti-desmoglein 3 B cells from different PV patients and defined acidic amino acid residues that are necessary and sufficient to confer desmoglein 3 autoreactivity. These VH1-46 B cells are autoreactive to the disease antigen in the absence of somatic mutation or require very few mutations to develop autoreactivity, which may favor their selection early in the immune response. Common VH gene usage is significant, because it may indicate common mechanisms for developing autoimmunity in PV. Ultimately, shared structural elements of the PV B cell repertoire (e.g., VH or CH gene usage) may lead to safer targeted therapies for pemphigus. Ongoing projects aim to identify potential foreign antigenic triggers of the desmoglein autoimmune response in pemphigus, to identify the B cell subsets that produce the pathogenic autoantibodies, and to develop effective targeted therapies.

Our laboratory is also investigating the cell regulatory pathways that promote desmosomal adhesion. We have shown that the p38 MAPK/MK2 axis is a critical regulator of desmosomal adhesion in keratinocytes and that inhibition of this pathway can ameliorate pemphigus skin blistering. Ongoing projects are studying the regulation of desmosomal adhesion and desmosomal protein expression in keratinocytes to better understand how anti-desmoglein antibodies cause the loss of cell adhesion and how we might interfere with these pathways to improve disease.



Penn Autoimmunity Center of Excellence

Type: Center

Summary:

Funded by the National Institute of Allergy and Infectious Diseases (NIAID), the Penn Autoimmunity Center of Excellence (ACE) is one of five clinical and translational research centers in the United States, connected to an additional five basic research centers. ACEs conduct clinical trials and collaborate to perform basic and translational research to better understand why autoimmunity occurs and how we can develop safer and more effective therapies for autoimmune diseases.

Clinical and Scientific Program
The Penn ACE focuses on B cells as drivers of autoimmunity for three debilitating and potentially life-threatening autoimmune diseases—multiple sclerosis, pemphigus vulgaris, and type 1 diabetes. Prospective randomized clinical trials have shown that B cells are established drivers of autoimmunity in these conditions, but the diseases differ in the ways in which B cells contribute to disease. The Penn ACE aims to better understand causes and mechanisms of autoimmunity, accelerate clinical research, and increase interdisciplinary collaborative research across these and other B cell-mediated autoimmune diseases.



Penn Cardiovascular Institute

Type: Institute

Summary:

The Penn Cardiovascular Institute (CVI) is a multi-disciplinary group of researchers and physicians dedicated to scientific discoveries and medical breakthroughs in heart and vascular care. Penn CVI focuses on translational research, which means taking basic research on the heart and using it to develop new clinical devices and treatments for cardiovascular disease.



Penn Center for AIDS Research

Type: Center

Summary:

The Penn Center for AIDS Research (Penn CFAR) is one of 20 NIH-funded CFARs and includes HIV and AIDS investigators at the University of Pennsylvania, the Children's Hospital of Philadelphia (CHOP), and the Wistar Institute.

The Penn CFAR's mission is to support, encourage and facilitate research in all areas of HIV/AIDS on the Penn/CHOP/Wistar campus by (a) facilitating communication and interdisciplinary collaborations through workshops, working groups, strategic planning efforts, and a seminar series covering all topics in the field; (b) support innovative pilot research in HIV/AIDS through developmental pilot grant programs including nonhuman primate-based research; (c) mentoring and support of junior investigators; (d) services and training in support of HIV research through Shared Cores: Clinical, Viral/Molecular, Immunology, Biostatistics & Data Management; Behavioral and Social Sciences; International; Nonhuman Primate.



Penn Center for Bioinformatics

Type: Center

Summary:

Bioinformatics at the University of Pennsylvania encompasses research, service, and education. The Penn Center for Bioinformatics (PCBI) is a base of operations that houses, nurtures, and catalyzes bioinformatics and computational biology research on campus. Experts from the School of Medicine and across the Penn community, PCBI members conduct independent research, but also consult and collaborate with other Penn faculty to contribute to research programs and Center grants. PCBI partners with bioinformatic cores on campus by communicating faculty needs and through its research. Finally, PCBI provides a home, teaching, and research projects for the Genomics and Computational Biology Graduate Group.



Penn Center for Clinical Immunology

Type: Center

Summary:

Immune-mediated diseases affect multiple organ systems and do not adhere to the traditional medical paradigm that organizes physician-scientists and clinicians into organ-based specialties to investigate and treat these diseases. Investigators interested in immune-mediated diseases have lacked a formal mechanism for integrating their individual efforts in a manner that efficiently fosters scientific discovery and translation thereof. Moreover, clinicians that care for patients with a broad spectrum of immune-mediated disorders have operated in a system that neither facilitates the delivery of optimal and integrated health care nor the translation of breaking scientific discoveries. In the current environment, development of an over-arching strategic vision and pursuit of collaborative efforts are hindered by an archaic separation into departmental and subspecialty spheres of influence. Recognizing this “disconnect”, scientists and clinicians at Penn have embraced a new, exciting paradigm that emphasizes the immunocentric basis of autoimmune, immunodeficiency, allergic, infectious, transplantation, and malignant disorders. Drawn together by common interests in the pathogenesis, diagnosis, and treatment of immune-mediated diseases, Penn clinicians and scientists across a broad spectrum of clinical and basic science departments including Medicine, Pediatrics, Surgery, Dermatology, Neurology, Pathology, and Microbiology have joined ranks under the auspices of the Penn Center For Clinical Immunology (PCCI).



Penn Center for Health, Devices and Technology

Type: Center

Summary:

TRANSLATION
Through our Project Management and Penn Health-Tech Pilot Award Program, we fund and provide program support to innovators across the University of Pennsylvania ecosystem. We deliver support throughout the innovation process by taking ideas from the novel research & discovery phases and moving them through prototyping to proof of principle.

INNOVATION
Penn Health-Tech accelerates medical technology innovation on campus by creating structure and providing resources for innovators across The University of Pennsylvania, The University of Pennsylvania Health System, and The Children’s Hospital of Philadelphia (CHOP), including idea vetting and support for programs from foundational to translational research.

EDUCATION
Our educational program offerings develop, educate, and advance the next generation of med tech innovation experts. Through our curricula, students, faculty, and researchers are exposed to all phases of the med tech lifecycle including: need finding, concept development and selection, regulatory, IP considerations, prototyping, preclinical testing, and commercialization.

CONNECTION
Forging connections is at the core of what we do to catalyze medical device innovation at the University of Pennsylvania. At our annual symposia, we unite internal and external experts in healthcare innovation. On a monthly basis, we bring clinicians and engineers together to brainstorm on an unmet medical need through our Penn Health-Tech Meet-UPs.



Penn Center for Innovation

Type: Center

Summary:

PCI helps to translate University of Pennsylvania discoveries and ideas into new products and businesses for the benefit of society.

It does this by facilitating technology development connections between Penn and the private sector. Whether the end result is a technology license, an R&D alliance, and/or the formation of a new venture, PCI acts as a “one stop shop” for industrial partners, providing access to the services and resources needed to engage in sponsored research, collaborations, technology licenses, new venture creation, and other types of partnerships with Penn.



Penn Center for Mental Health

Type: Center

Summary:

We are Penn Center for Mental Health (CMH), the premier academic center for advancing mental health research, policy, training and practice. Our dedicated, multidisciplinary faculty and staff connect research and evaluation findings to policy decisions and to delivery and implementation of services to improve the lives of people with psychiatric and developmental disabilities.

CMH was founded in 1984 at the Perelman School of Medicine at the University of Pennsylvania and is nationally recognized for its research, technical assistance, practice and academic training in adult and children’s mental health services. Since then, we have been a champion for people living with or at-risk for mental health problems, supporters of the people and programs responsible for creating policy and system change, and have conducted rigorous research, and have provided unparalleled community partnerships and research training for undergraduate, graduate, doctoral and postdoctoral trainees.

Our work continues to increase the likelihood that people currently living with mental health needs are treated with techniques proven to result in more positive outcomes.



Penn Center for Molecular Discovery

Type: Center

Summary:

The Penn Center for Molecular Discovery (PCMD), founded at the University of Pennsylvania, is a multi-disciplinary center that screens small molecules from around the world in search of new, potentially useful biologically effective agents. The Penn Center for Molecular Discovery is housed within the Institute for Medicine and Engineering.The Director of the Center is Scott Diamond, Ph.D., the Arthur E. Humphrey Professor of Chemical and Biomolecular Engineering. The PCMD contributes to a massive, public-domain database (PubChem) where interactions between the NIH repository and thousands of biological targets can be data-mined at an unprecedented level.



Penn Center for Musculoskeletal Disorders

Type: Center

Summary:

The Penn Center for Musculoskeletal Disorders in the Perelman School of Medicine at the University of Pennsylvania was awarded a five-year, $4 million grant from the National Institutes of Health to continue its research on musculoskeletal injury and repair.

The Center conducts investigations in many areas of musculoskeletal biology and medicine: bones, muscles, tendons, ligaments, cartilage, and discs. The funding will support research aimed at improving the prevention, diagnosis, and treatment of conditions such as osteoporosis, osteoarthritis, low back pain, and rotator cuff tears.

Penn’s Musculoskeletal Center will provide funds for three cores of musculoskeletal research:

-- Micro–computed Tomography Imaging Core, which offers a wide range of imaging approaches to evaluate musculoskeletal tissue injury and repair. (Micro-CT is akin to three-dimensional x-ray imaging on a small scale with extremely increased resolution.)
-- Biomechanics Core, which develops and provides a large array of biomechanical approaches to evaluate musculoskeletal tissue injury and repair.
-- Histology Core, which uses and develops a wide range of approaches for the microscopic study of the structure, composition, and function of tissues and bones.



Penn Center for Precision Medicine

Type: Center

Summary:

The Penn Center for Precision Medicine (PCPM) works to enhance the development of precision medicine efforts, as well as implement precision-medicine-based clinical care in the fabric of routine care.

We hope to forge strong interconnections between the people who are making impactful scientific discoveries every day and the clinicians and clinical teams delivering outstanding care. We also serve as a source of information for both programs and centers within the health system and for organizations outside that wish to explore partnerships with us.

To accomplish these goals and advance precision medicine, we have the following four initiatives in place:
-- Measure Outcomes
-- Build Infrastructure to Maximize Synergies
-- Integrating Precision Medicine into Patient Care
-- Present s robust Outward Facing Presence

Measure Outcomes
We bring together an interdisciplinary team with expertise in data analysis, biostatistics and health economics to allow us to measure both biological (medical) and economic (cost and cost avoidance) outcomes. These measurements will be critical to evaluate the success of our efforts.

Build Infrastructure to Maximize Synergies
We’re building a structure that will better integrate efforts, break up silos and achieve more synergy. This infrastructure includes:
A fellows program to help faculty leaders vet and develop precision medicine projects
Two assistant directors tasked with bringing clinicians, physician-scientists and researchers together
An “accelerator fund”, designed to support projects that test novel, interdisciplinary precision medicine approaches that directly impact patient care
A translational innovation laboratory to help us continuously innovate and accelerate the translation and validation of cutting-edge diagnostic technology.

Integrate Precision Medicine in Patient Care
Our biggest goal is to translate the advances in precision medicine into daily care for our patients. We’re employing “demonstration projects” to bring precision medicine into routine patient operations and measure their impact.

Present an Outward-Facing Presence
We’ll communicate Penn’s leadership in precision medicine to internal staff and to the broader public via online and social media outreach and an annual symposium.



Penn Center for Pulmonary Biology

Type: Center

Summary:

The Penn Center for Pulmonary Biology (PCPB) is an interdisciplinary center focused on the identification and harnessing of disease causing mechanisms that affect the respiratory system. Respiratory disease is the third leading cause of death in the United States, after cardiovascular disease and cancer. While deaths rates due to cardiovascular disease and cancer have been declining, the rates of death due to lung disease has been climbing. In the pediatric population, pulmonary disease remains a leading cause of neonatal distress and death. The PCPB brings together a diverse group of investigators and clinicians to unravel the underlying mechanisms of respiratory disease and begin to utilize such findings to improve clinical medicine.

The Primary Goals of the PCPB are:
-- Create resources at Penn and CHOP to facilitate basic discovery through translational research in pulmonary biology with a focus on using humans as a "model system"
-- Bring together researchers directly involved in pulmonary research as well as those outside the field to build an interactive and rigorous community capable of addressing the most compelling and important questions in pulmonary biology
-- Educate and train the next generation of scientists and physician-scientists who are critical for the future success of pulmonary research.



Penn Center for Research on Coronavirus and Other Emerging Pathogens

Type: Center

Summary:

The goals of the Center are to:

1) Expand and accelerate SARS-CoV-2 research at Penn, CHOP and Wistar.
2) Provide centralized information on SARS-CoV-2 research developments in our community and globally.
3) Compile information and catalyze opportunities for new funding for research on SARS-CoV-2 and other emerging pathogens.



Penn Center for Women's Behavioral Wellness

Type: Center

Summary:

The Penn Center for Women's Behavioral Wellness is a collaboration between the Departments of Psychiatry and Obstetrics/Gynecology in the Perelman School of Medicine at the University of Pennsylvania. The PCWBW provides clinical consultation and treatment, as well as opportunities to participate in research focusing on conditions related to women’s behavioral health across the lifespan; from menarche to menopause.

Our Center takes the lifespan approach to women's behavioral wellness for the following reasons:
-- Health maintenance activities at early stages of the life cycle can have a powerful impact on health and well-being at later stages.

-- Clinical conditions occurring at one stage of the female life cycle can reoccur or worsen at other stages.

-- New knowledge gained from research in one area of women's behavioral health may advance our understanding of the causes of behavioral health issues at multiple stages in a women’s reproductive life.



Penn Center for Youth and Family Trauma Response and Recovery

Type: Center

Summary:

The Penn Center for Youth and Family Trauma Response and Recovery (CYFTRR) was founded in 2009 in order to offer the most effective treatments for children, adolescents and their families who are suffering from symptoms of traumatic stress and other difficulties after exposure to violence, crime and abuse.

The Center provides a range of interventions for children and their families and addresses the physical and psychological symptoms. In addition, we assist families to cope with many of the related issues that frequently occur in the aftermath of traumatic events. We are the only provider in the Philadelphia area that offers an effective early intervention for youth who have had a recent traumatic experience as well as treatments for youth with existing PTSD and post-traumatic difficulties.



Penn Center for the Prevention of Suicide

Type: Center

Summary:

The Penn Center for the Prevention of Suicide aims to advance global mental health equity, promote recovery, reduce stigma, and save lives by developing, evaluating, disseminating and implementing evidence-based practices, including cognitive behavior therapy, for individuals, families, providers, communities, and health systems in need of support.



Penn Chemistry NMR Facility (Penn)

Type: Core Laboratory

Summary:

Penn Chemistry NMR Facility provides researchers in the Chemistry and Materials Science and Engineering department access to state-of-the-art instrumentation for high resolution NMR spectroscopy. The Facility provides users extensive training to use spectrometers without supervision and expert advice/consultation on advanced applications of NMR spectroscopy to solve research problems.

At present, the Facility operates ten high resolution NMR spectrometers (300-600 MHz) of varying capabilities located in the Chemistry building at the corner of 34th and Spruce street, Philadelphia, PA."

"Penn Chemistry NMR Facility provides limited solution NMR services (data acquisition and spectrum/structure analysis) to other departments/centers of University of Pennsylvania based on hourly charges. However, these services will be limited to the availability of instrument time and personnel.

NMR Facility accepts service samples from outside academic and industrial customers based on per hour charges.



Penn Epigenetics Institute

Type: Institute

Summary:

The goal of the Penn Epigenetics Institute is to advance basic and applied research in chromatin biology and epigenetics, building on current interest both in mechanisms underlying epigenetic regulation, and in unraveling genome-wide chromatin patterns, commonly known as epigenomes. While genetic approaches to altering cell and tissue function involve direct perturbation of the genome, epigenetic approaches involve the use of small molecules to modulate enzymes and chromatin binding proteins and thus provides a novel approach for developing therapies and diagnostics to improve human health. The Epigenetics Institute encourages collaborations between basic and clinical research in epigenetics. Common diseases, such as cancer and metabolic syndromes, as well as brain and memory function, are established and disrupted by these pathways. The Epigenetics Institute offers monthly research meetings, sponsors seminars, organizes annual symposia and retreats, recruits and mentors faculty, galvanizes large group projects leading to new research grant opportunities, establishes technology cores, among other long-term projects. The Epigenetics Institute currently encompasses a Core Group of 30 faculty members, and participation of more than 60 laboratories from the Philadelphia area, including Penn, CHOP, Wistar, Jefferson, Fox Chase, Drexel and Temple.



Penn Genomics Analysis Core

Type: Core Laboratory

Summary:

The DNA Sequencing Facility provides reliable, long read, automated Sanger sequencing with fast turnaround; microsatellite-based genotyping and fragment analysis; plasmid and BAC DNA preparation and purification; and related molecular biological services including PCR, cloning, sub-cloning, site-directed mutagenesis, and preparation of targeting vectors for gene targeting in mice. It also provides services and support for analysis and interpretation of sequence data as well as the design of approaches to complex sequencing projects.

For the last four years the facility has been providing Roche 454 sequencing service that includes library preparation, emulsion PCR and pyrosequencing for both genomic DNA and amplicons. Data analysis is provided in each project depending on the investigator’s specific need.

Ion Torrent's Personal genome machine (PGM) is the latest addition at the facility. Known for scalability, simplicity and speed, this inexpensive technology is advancing fast to achieve new goals in terms of throughput and read length. The maximum read length and the throughput available at this point is 200 b and 1 Gb respectively. The applications are similar to those of long-read 454 sequencer and includes targeted resequencing of barcoded samples, sequencing of captured library, sequencing of bacterial and viral genomes, sequencing of metagenomic samples, RNA-seq specially small RNA sequencing and validation of sequence data obtained on other platforms. The sequencer comes with Torrent Suite, the Torrent server analysis pipeline that is the primary software used to process raw data acquired by PGM sequencer to produce sequence read files. The base calls are in both SFF and FASTQ file formats for easy downstream analysis with third party analysis tools. The Torrent suite performs filtering, trimming, mapping with the generation of a Variant Caller report. This long read sequencer is going to bring down the cost of new generation sequencing significantly.

The range of services mentioned above along with the expertise of the facility personnel enables this core to provide full support for investigators at Penn, who can easily obtain fast, reliable data on genes of interest, whether they are doing targeted or whole genome tumor genome sequencing, deep resequencing, screening clones for sequences of interest, establishing the identity of new clones, or searching for mutations in specific genes.



Penn Gnotobiotic Mouse Facility (Penn)

Type: Core Laboratory

Summary:

The Penn Gnotobiotic Mouse Facility (PGMF) provides centralized germ-free and gnotobiotic mouse services. The PGMF maintains several common strains of germ-free mice that are available upon request, and provides re-derivation services for generating customized germ-free and gnotobiotic mouse strains. In addition, the PGMF offers the Penn research community access to isolators for utilizing germ-free and gnotobiotic mice during IACUC-approved experimental procedures. To further meet the needs of investigators, the PGMF provides technical support required for various experimental procedures.



Penn Image Computing & Science Lab

Type: Laboratory

Summary:

The major area of the laboratory’s research and development is in the field of Biomedical Image Analysis, with particular focus on computational methods for quantifying the ways in which anatomy can vary in nature, over time, or as a consequence of disease or intervention. These methods aim to improve the detection of subtle changes on imaging studies and thus the specificity and reliability of diagnosis in patients with diseases who exhibit such changes and for whom there are often no known clinical diagnostic procedures. A precise understanding of normal and pathological variations in anatomy is also prerequisite for accurate localization of function that is critical to the success of imaging studies of organ structure-function relationships in health and disease. Internationally recognized for seminal contributions to computational anatomy, PICSL’s current work spans numerous collaborations across a variety of disciplines and includes applications of image analysis to study the biomechanics of moving organs; the normal development and pathological correlates of brain structure; and the correlation between brain structural changes and cognitive deficits in central nervous system disorders.

A primary goal of this research is to translate into practical tools and make freely and publicly available cutting-edge image analysis methods that are essential for extracting the most information from medical imaging data. PICSL’s founding role in the development of the open-source Insight Toolkit combined with the toolkit’s use for all software development, maintenance and dissemination at the laboratory ensures long-term continuity of support of the developed tools. In addition, PICSL is the inaugural collaboration partner of the National Centers for Biomedical Computing, which are specifically charged to foster translational research in biomedical computing.

This research is also complementary to the laboratory’s educational activities, which focus on training that is at the interface between medicine and the engineering and computational sciences. PICSL has been a principal architect of a newly awarded initiative from the Howard Hughes Medical Institute (HHMI) and NIH to develop an interdisciplinary Ph.D. program in Clinical Imaging and Informational Sciences. This HHMI-NIBIB Interface Award will establish and develop the infrastructure for a new graduate program in biomedical image science.

PICSL is a part of the graduate groups of the Departments of Computer and Information Science, and Bioengineering. It is affiliated with the Centers for Functional Neuroimaging, forBioinformatics and for Cognitive Neuroscience, the Institutes for Medicine and Engineering and for Translational Medicine and Therapeutics, the General Robotics, Automation, Sensing and Perception Laboratory, the Working Group on Applied Mathematics and Computational Science, and the Leonard Davis Institute of Health Economics, and is a founding member of the Center for Health Informatics at Penn, the Penn Center for Musculoskeletal Disorders, and the National Library of Medicine Insight Consortium.



Penn Institute for Computational Science

Type: Institute

Summary:

The Penn Institute for Computational Science (PICS) is a cross-disciplinary institute for the advancement, integration, and support of Penn research via the tools and techniques of high-performance computing. Because scientific computing stretches across all areas of science, engineering, medicine and increasingly the humanities, PICS impacts the entire university. PICS promotes research through a regular seminar series, an annual conference, by hosting joint research projects and through researcher and student training.



Penn Institute for Immunology

Type: Institute

Summary:

Our Mission

• Advance our knowledge of the basic immunology of inflammation, autoimmunity, cancer, transplantation and infection and to translate this new knowledge to novel strategies for diagnosis, prevention and therapeutic intervention.

• Foster collaborations and further strengthen interactions among the Penn community of immunologists.



Penn Medicine Academic Computing Services (Penn)

Type: Core Laboratory

Summary:

The Penn Medicine Academic Computing Services (PMACS) organization was recently formed through the consolidation of several of the largest groups on campus providing computing services to departments, centers and institutes. The PMACS team now consists of approximately eighty information technology professionals providing services such as desktop support, server administration, storage management, high performance computing, software development, data base development, vendor application deployment/support and staff leadership. This new organization will continue to evolve and grow to meet the education, research and administrative computing needs of the entire Perelman School of Medicine.



Penn Medicine BioBank

Type: Biorepository

Summary:

The Penn Medicine BioBank assists researchers in need of access to human samples. Our facility banks blood specimens (i.e., whole blood, plasma, serum, buffy coat, and DNA isolated from leukocytes) and tissues (i.e.,formalin-fixed paraffin embedded, fresh and flash frozen). All studies requesting specimens must have IRB-approval for access to human samples. Additionally, each study must apply to the Penn Medicine BioBank Steering Committee for approval. Requests for blood and tissue will be reviewed by a panel of scientists and ranked. Priority will be given to those investigators with current NIH funding, but will be made available as recommended by the Steering Committee. These access decisions will be made on an individual basis, though the committee may consider some or all of the following issues: the nature and scope of the project, how much sample is requested, and the impact on Penn Medicine.



Penn Medicine Translational Neuroscience Center

Type: Center

Summary:

As a Center within the Perelman School of Medicine (PSOM) at the University of Pennsylvania, the Penn Medicine Translational Neuroscience Center (PTNC) is dedicated to accelerating and translating discoveries to transform the prevention, diagnosis and treatment of neuropsychiatric and neurological conditions. This year, we held an inaugural PTNC scientific retreat that included 30 basic and clinical neuroscientists across 16 departments and 4 schools at Penn. Generating a collective vision for the neurosciences, the group identified key research priorities that have the greatest potential to transform patient care. Based on this discussion, we identified two thematic areas that provided the focus for the first round of requests for applications a new Translational Neuroscience Initiative (TNI): (1) modulation of neural circuits for preventive health behaviors or recovery from neuropsychiatric or neurological disease, and (2) neuroimmune mechanisms and treatment for neuropsychiatric or neurological disease. In addition, the PTNC is working closely with Penn’s new Institute for Bioinformatics to create a neuro-informatics infrastructure to support translational research, and is developing a Translational Neuroscience Pipeline that facilitates industry partnerships. PTNC is also partnering with the Mahoney Institute for Neurosciences to enhance integration and synergies across the neurosciences at Penn. We welcome faculty within Penn’s neuroscience community to become members of the PTNC, and look forward to working with you to promote translational neuroscience research at Penn.



Penn Memory Center

Type: Center

Summary:

The Penn Memory Center is a single, unified Penn Medicine source for those age 65 and older seeking evaluation, diagnosis, treatment, information, and research opportunities related to symptoms of progressive memory loss, and accompanying changes in thinking, communication and personality.

We offer state-of-the-science diagnosis, treatment and research, focusing on individuals with Alzheimer’s disease, mild cognitive impairment (MCI) and other age-related progressive memory disorders. The PMC is supported in part by the National Institute on Aging.



Penn Neurodegeneration Genomics Center

Type: Center

Summary:

Penn Neurodegeneration Genomics Center (PNGC) is part of the Department of Pathology and Laboratory Medicine, in the Perelman School of Medicine, at the University of Pennsylvania.

PNGC studies genetics of Alzheimer’s Disease and other related dementia. Our researchers apply high throughput genotyping and sequencing technologies to analyze tens of thousands of genomes and find novel genes. New experimental approaches, algorithms, and databases are developed in order to translate these findings into biological knowledge about the disease and new directions for drug discovery and preventive strategies.



Penn Program in Single Cell Biology

Type: Institute

Summary:

The human body is comprised of an estimated 100 trillion cells, each differentiated from a single cell. But, the number of distinct cell types, the molecular basis of their function, and the aggregate functional role in a tissue or an organ are unknown. Mapping the cellular phenotype, like mapping the human genome, is the next frontier in understanding the cellular basis of organism function. A cellular foundation of organism function requires intimate quantitative knowledge of molecular components of single cells and the assembly of the constituent parts in the context of how they interact with one another. Such studies entail developing methods for single cell analysis including, 1) quantitative phenotypic characterization, 2) high throughput individual cell culturing and manipulation, and 3) quantitative model analysis of phenotype. Data generated from the activities of this program will provide insight into functional system development and maintenance while providing means for directed manipulation of cellular systems. At the heart of solving many grand challenges in biomedicine is the true integration of a systems level and synthetically driven manipulation of living cells, which will also be therapeutically relevant.

The mission of this program is to promote interdisciplinary collaboration in single cell analyses, while providing access to resources and technologies. In addition, the program seeks to develop new technologies that will have application in the understanding of single cell function.



Penn Statistics in Imaging and Visualization Endeavor

Type: Center

Summary:

The Penn Statistics in Imaging and Visualization Endeavor (PennSIVE), a Center of Excellence based in the Center for Clinical Epidemiology and Biostatistics (CCEB), includes laboratories developing and applying biostatistical methods for image analysis. Established in 2012, PennSIVE has been at the forefront of developing new frameworks for understanding and mitigating fundamental epidemiologic biases in multi-center and observational imaging studies. By collaborating with psychiatrists, neurologists, radiologists, and basic neuroscientists, investigators at PennSIVE have been building and applying the next generation of tools necessary for imaging epidemiology. Through immersive training programs at the pre- and post-doctoral levels, PennSIVE aims to produce a generation of highly sought-after imaging statisticians, as well as a network of co-trained bioengineers, clinician-scientists, and neuroscientists.



Penn Transplant Institute

Type: Institute

Summary:

The Penn Transplant Institute, led by Abraham Shaked, MD, PhD, is one of busiest solid organ transplant centers in the country, providing exceptional global care for the transplant recipient, and leading in cutting edge research in transplant science.

The Penn Transplant Institute has active programs in hand, heart, kidney, liver, lung, pancreas and islet cell transplantation, as well as living donor programs for kidney and liver.

In addition, the liver and kidney transplant programs at Penn Medicine and the Children's Hospital of Philadelphia (CHOP) have collaborated for decades to provide pediatric transplant care.

Penn offers total integration of care for all transplant recipients from pre-surgery management, through the transplant surgery and postoperative care.



Penn Vector Core- Gene Therapy Program

Type: Core Laboratory

Summary:

The Penn Vector Core is a full-service viral vector core facility located on the University of Pennsylvania campus. With over a decade of experience in the production of viral-based vectors, the Core has become an important technological resource for investigators, both within and external to Penn, interested in the use of viral-based vectors for gene transfer. The main objective of the Core is to provide investigators access to state-of-the-art vector technology for preclinical studies and other basic research applications. Such studies, utilizing carefully designed viral vectors, can provide information critical to the understanding of gene function and the development of therapeutic vectors. The Penn Vector Core specializes in the provision of novel AAV serotype vectors, and has the greatest experience in producing novel serotype vectors developed at Penn. AAV 1, 7, 8, 9, and rh10 were originally isolated at Penn in the laboratory of Dr. James M. Wilson, and first made available to investigators through the Penn Vector Core. Due to its close proximity to the Wilson laboratory, the Penn Vector Core is able to rapidly assimilate new vector technologies and make them available to its users. The Core offers a variety of novel serotype AAV vectors, and additional vectors currently under development will be distributed through the Penn Vector Core. All of the vectors generated by the Penn Vector Core are distributed under material transfer agreements (MTA) to academic, government, and non-profit institutions.



Penn Vet Imaging Core

Type: Core Laboratory

Summary:

The Penn Vet Imaging Core (PVIC) provides access to cutting-edge optical imaging capabilities for researchers at the University of Pennsylvania, Children's Hospital of Philadelphia, and Wistar Institute.

The PVIC includes instruments to perform widefield, confocal, multiphoton, fluorescence lifetime, and total internal reflection fluorescence (TIRF) microscopy, as well as software tools for image analysis.



PennCHOP Microbiome Program

Type: Center

Summary:

Mission Statement: The goals of the Microbiome Program are to understand the human microbiome and alter its properties to improve health.

The Human Microbiome Project is the largest project ever in Microbiology, and has been prominently advanced by work at Penn and CHOP.

The human body is a community of organisms, more like a coral reef than a single fish. Numerous microbes inhabit our bodies, and as with organisms on a reef, some are mutualists, helping the reef grow and prosper, some are neither helpful nor harmful, while others are pathogenic and degrade the reef material.

The bugs living in association with humans contribute a pound or two to the weight of a healthy adult. The bulk of these organisms are in the gut, but many body sites are colonized by microbes, which form distinct communities at each location. These communities contribute numerous biological functions. Some are important in health, such as promoting proper immune development and aiding digestion. Others harm the human host and cause disease.

Methods for studying the microbiome have greatly improved in recent years, leading to an explosion of new research. In particular, the development of extremely high throughput DNA sequencing methods has allowed characterization of mixed microbial communities using DNA sequence information. This allows quantification of communities at specific body site in different people, which has shown that humans can be very different from each other. These methods also allow researchers to investigate changes in the microbiome associated with disease states.

It is as though a new organ has been discovered, made up of microbial cells and not human cells.

Today the microbiome is known to influence the course of numerous diseases, such as heart disease, cancer, diabetes, inflammatory bowel disease, autism and obesity to name a few. Based on these findings, the PennCHOP Microbiome Program is using new understanding of the microbiome to design interventions to promote health and cure disease.



Pennsylvania Muscle Institute

Type: Institute

Summary:

The Pennsylvania Muscle Institute is an interdisciplinary group of research investigators. Our goal is to discover the the mechanisms of muscle function, muscle disease and motile biological systems through innovative and cross-disciplinary research, and to apply these discoveries to new therapies.

We aim to develop state-of-the art technologies for the study of muscle and motile systems, while providing education and training in muscle biology and motility to scientists, physicians, and students.

Research is conducted using biophysics, biochemistry, genetics, physiology and ultrastructure to understand: cell migration and intracellular transport; molecular motors; cell division; muscle contraction and development; muscle pathologies and therapies targeted to muscle disease.

The PMI is prominent in technological and methodological development for these investigations especially in advanced light microscopy, structural spectroscopy, nanotechnology, biochemical kinetics, image processing, molecular biology, and viral gene targeting.



Perelman School of Medicine

Type: College

Summary:

The University of Pennsylvania is the oldest and one of the finest medical schools in the United States. Penn is rich in tradition and heritage and at the same time consistently at the forefront of new developments and innovations in medical education and research. Since its founding in 1765 the School has been a strong presence in the community and prides itself on educating the leaders of tomorrow in patient care, biomedical research, and medical education.



Phlebotomy (Wistar)

Type: Biorepository

Summary:

The purpose of Wistar's phlebotomy service is to collect blood from healthy donors to be used for conducting biomedical research that impacts many areas of human health, particularly cancer and infectious diseases. An experienced phlebotomist coordinates the collection, performed under protocols approved by The Wistar Institute Institutional Review Board.

The impact of blood donations to Wistar is enormous, providing essential material for biomedical research. By giving a little, you will empower Wistar scientists to gain a lot.



Pierce Lab

Type: Laboratory

Summary:

Molecular Genetics of Inherited Blindness
Inherited retinal degenerations such as retinitis pigmentosa (RP) are common causes of blindness. The overall goals of our research program are to improve our understanding of the molecular bases of inherited retinal degenerations and related cilia disorders so that rational therapies can be developed for these diseases.

We currently have 4 active research projects directed towards these goals:

1. The Biology and Diseases of Photoreceptor Sensory Cilia
Cilia are present on most cells in the human body. These structures are typically sensory organelles, and are involved in many critical aspects of cell biology and development. The photoreceptor sensory cilium (PSC) elaborated by each rod and cone photoreceptor cell of the retina is a classic example. Consistent with the importance of cilia in biology, mutations in genes that encode cilia components are common causes of disease. Mutations that cause inherited retinal degenerations, which are common causes of blindness, have been identified in genes encoding more than 40 PSC proteins to date. These disorders are characterized by PSC dysfunction, followed by degeneration and death of the photoreceptor cells, resulting in loss of vision.
We are interested in studying how photoreceptor sensory cilia are built and maintained, and how these processes are disrupted in disease.

Retinitis Pigmentosa 1
Part of our work on PSCs is focused on the retinitis pigmentosa 1 (RP1) protein. Mutations in RP1 are a common cause of dominant RP, which is the most common form of inherited retinal degeneration. Work in our lab has found that the RP1 protein is a photoreceptor microtubule-associated protein that is required for the correct formation of PSCs. We are now working to identify proteins that interact with RP1 in order to further define how it participates in PSC formation, and study how its mutations lead to photoreceptor cell death. We are also beginning to test potential therapies for RP1 disease, including gene augmentation therapy, in point mutation Rp1 knockin mice.

2. RNA Splicing Factor Retinitis Pigmentosa
Mutations in genes that encode the RNA splicing factors are common causes retinitis pigmentosa (RP). Despite their prevalence, the pathogenesis of these disorders is not understood. The splicing factors affected, pre-mRNA processing factor (PRPF) 3, PRPF8, PRPF31 are highly conserved components of the spliceosome, the complex which excises introns from nascent RNA transcripts to generate mature mRNAs. Since RNA splicing is required in all cells, it is not clear how mutations in these ubiquitous proteins lead to retina-specific disease. We hypothesize that mutations in these RNA splicing factors disrupt RNA splicing and lead to the generation of aberrant transcripts and proteins in the retina and other tissues, one or more of which are pathogenic in the retina. We have generated Prpf3 and Prpf8 knockin mice to investigate the pathogenesis of the RNA splicing factor forms of RP. We are now using exon microarray and next generation sequencing based transcriptome analyses to identify aberrant mRNAs that may be pathogenic in these disorders.

3. Inherited Macular Degeneration
Age-related macular degeneration (AMD) is one of the most common cause of vision loss in developed countries. The most characteristic clinical finding in the retinas of patients with AMD is drusen, or extracellular deposits of protein, lipid and debris that accumulate underneath the retinal pigment epithelium (RPE). At present, the etiology of drusen in AMD is not known, and there are only limited treatments are available to prevent the progression of AMD. In order to gain insight into the pathogenesis of AMD, we are studying an inherited form of macular degeneration called Doyne honeycomb retinal dystrophy (DHRD)/Malattia Leventinese (ML). Both DHRD and ML are caused by a single mutation, Arg-345 to Trp (R345W), in the EFEMP1 or Fibulin-3 gene. We have used gene targeting techniques to introduce this mutation into the Efemp1 gene of mice. We have found that the Efemp1-R345W knockin mice develop AMD-like deposits under their retinas, and are now using proteomic analyses to study the pathogenesis of these lesions.

4. Oligonucleotide-Directed Gene Targeting and Gene Correction
The fundamental premise of this project that oligodeoxynucleotides (ODNs) can be used to introduce sequence-specific alterations into the genomic DNA of stem cells. In mouse embryonic stem (ES) cells, the goal of ODN-mediated gene targeting is to create knock-in mouse models of human disease. In adult and induced pluripotent stem cells (iPS), the use of ODNs is directed toward the therapeutic correction of pathogenic mutations in human disease genes. Results generated from our research and from other investigators in the past several years have demonstrated proof of principle for this approach. We are working to build on these successes to develop strategies for broad application of ODN-mediated gene correction for the treatment of human disease and ODN-mediated gene targeting for the generation of mouse models of disease.



PolicyLab

Type: Center

Summary:

The mission of PolicyLab at Children’s Hospital of Philadelphia (CHOP) is to achieve optimal child health and well-being by informing program and policy changes through interdisciplinary research. PolicyLab is a Center of Emphasis within Children’s Hospital of Philadelphia Research Institute, one of the largest pediatric research institutes in the country.

Founded in 2008, we research, develop and implement evidence-based solutions that are responsive to community needs and relevant to child health policy priorities. We collaborate with practitioners, families and policymakers throughout the research process because we know we cannot achieve improved child health outcomes by ourselves. And since research articles on their own are unlikely to produce change, we have a dedicated team of communications and policy professionals who work with our researchers to translate their work for a broad array of program and policy audiences.
Our resources include:
--- policy analyses and briefs,
--- population needs assessments,
--- program implementation and evaluation, and
--- expert testimony and commentary.

Our work is focused in five areas: adolescent health and well-being, behavioral health, health care coverage, access and quality, health equity and intergenerational family services. The wide array of projects within those portfolios include topics such as immigrant and refugee health, sexual and reproductive health, transgender health outcomes, children’s health insurance, health and technology, family support in pediatric settings and integration of behavioral health services into community settings.

Our work is guided by PolicyLab’s 2019-2022 Strategic Plan, which outlines our vision and goals of conducting high-impact research, increasing our capacity to create meaningful policy change and maintaining strong relationships with our partners.



Poncz Laboratory

Type: Laboratory

Summary:

My research efforts focus on the megakaryocyte-platelet-thrombus axis. The process by which hematopoietic stem cells differentiate into megakaryocytes, which then release platelets and the function of platelets in thrombosis and inflammation are the central foci of my laboratory. Many of the studies focus on the biology and pathobiology of the platelet-specific proteins, chemokines Platelet Factor 4 (PF4)/Platelet Basic Protein (PBP) and the integrin alphaIIb/beta3 receptor.



Positron Emission Tomography Center (Penn)

Type: Core Laboratory

Summary:

The PET Center is dedicated to continuing the advancement of molecular imaging and seeks to build a network of collaborators to conduct translational research using existing and new radiotracers to help better understand the diagnosis, physiology and treatment of multiple diseases.

We strive to educate referring clinicians and their patients about the emerging benefits of PET/CT diagnostic procedures, other radiotracer imaging methods and radionuclide therapies as tools in their research and clinical practice.

The PET Center is committed to providing opportunities and mentoring for individuals interested in pursuing work or collaborations within the molecular imaging field.



Preclinical Models Core

Type: Core Laboratory

Summary:

The Preclinical Models Core (PMC) was developed in response to a user survey that emphasized a need for an IDD-focused facility for the study of mammalian behavior and one to address the potential of current stem cell technologies, including genome editing using CRISPR-Cas9.



Preclinical Service Core & Comparative Orthopedic Research Laboratory

Type: Core Laboratory

Summary:

The Preclinical Service Core & Comparative Orthopedic Research Laboratory (PSC-CORL) at the University of Pennsylvania School of Veterinary Medicine (Penn Vet) is focused on non-clinical and clinical (VICH-GL9) translation. Leveraging the multi-disciplinary specialties at Penn Vet, P​SC​-CORL provides a refined platform of successful translation using experimental and naturally-occurring disease models. We partner with pharmaceutical and medical-device companies, government agencies, and academic institutions to meet a broad range of R&D needs.

Specialties: Preclinical study design and execution from proof-of-concept to pivotal trials compliant with the United States Food and Drug Administration (FDA) Good Laboratory Practice (GLP) Regulations, 21 CFR Part 58 and VICH-GL9. Bioskills training and prototype testing.



Preti Laboratory

Type: Laboratory

Summary:

Research in my laboratory focuses upon the nature and origin of human odors, particularly those from the underarm (axillae) and the oral cavity. We have identified the structures of many human axillary odorants, demonstrated the presence of human primer and modulator pheromones in the axillary secretions and have used our knowledge of body chemistry to diagnose disease and the time of optimum fertility in females. We are pursuing the structures of the active pheromone constituents via a bioassay-guided isolation procedure as well as employing gas chromatography-mass spectrometry (GC/MS) to generate metabolic profiles (“metabolomics”) of human urine, skin and axillary secretions to identify biomarkers of disease, individual identity and stress. In addition we study the amelioration of malodors from humans with the odor producing metabolic disease, Trimethylaminuria, as well as from agricultural and environmental activities via cross-adaptation, odor absorption and anti-microbial agents.



Prevention Science and Community Engagement Core

Type: Core Laboratory

Summary:

The mission of the Prevention Science and Community Engagement Core (PSCE) is to identify, foster and support new opportunities for social and behavioral research in HIV/AIDS that both serve the needs of CFAR investigators and enable research in emerging CFAR and national scientific priorities. The PSCE strives to facilitate scientific and operational linkages between CFAR behavioral and social scientists and clinical and basic science investigators; lead the Penn CFAR in developing meaningful community partnerships, and enable the HIV/AIDS research agenda in areas of high opportunity and synergy including the Scientific Working Group in Technology to Reduce HIV Disparities and through collaborations with the new Philadelphia Mental Health AIDS Research Center. The Core is led by Drs. David Metzger (Core Director), Michael Blank (Co-Director), John Jemmott (Core Investigator), Anne Teitelman (Core Investigator) and Tiffany Dominique (Core Coordinator).



Program for Comparative Medicine- Gene Therapy Program

Type: Core Laboratory

Summary:

The Program for Comparative Medicine (PCM) facilitates the translation of basic science knowledge into clinical applications by using state-of-the-art facilities to conduct discovery research and nonclinical studies in small and large animal models.



Proteomics Core Facility (CHOP)

Type: Core Laboratory

Summary:

The Children's Hospital of Philadelphia Research Institute (CHOP) Proteomics Core Facility (PCF) provides a variety of protein and proteomics services for investigators at CHOP, University of Pennsylvania, and outside institutions. These services include producing and characterizing proteins, investigating protein-protein interactions, and characterizing whole proteomes. Some services are provided on a user-operated, sign-up basis, while others are performed as full-service by the dedicated facility personnel. Protein expression services include recombinant protein production in bacteria. HPLC and FPLC equipment, columns and resins are available for a variety of purification needs. Endogenous fluorescence, circular dichroism, and analytical ultracentrifugation can be used to characterize folding status of proteins and their interactions with small molecules and other proteins or nucleic acids.

A wide range of state-of-the-art proteomics experiments are possible. These include, but are not limited, to intact mass determination, post-translational modification analysis, protein identification, and targeted (e.g. co-immunoprecipitation) or comprehensive (e.g. protein expression profiling) proteome analysis. Proteome analysis may employ a number of different isotope-labeling strategies enabling quantitative measurements on our high resolution discovery platforms (Orbitrap-Elite and Q-Exactive HF mass spectrometers) for deep proteome coverage or multiplexed targeted quantification on our triple quadrupole mass spectrometer (Xevo-TQS). Unique among regional cores is our ability to quantitatively analyze proteomes, phosphoproteomes, ubiquitylomes, and lysine acetylomes at a deep level through a process of serial enrichment. Under development are refinements of statistical and bioinformatic analyses of proteomic results. It is also possible to tailor sensitive and specific methods for multiplexed protein quantification according to the investigator’s needs. Workflows for all the aforementioned protein and proteome analyses are unique to each project and can involve a range of multi-dimensional separation techniques coupled to the appropriate mass spectrometer. For all but the most routine services and/or first-time submissions, a strong interaction with PCF staff and consultation with Dr. Seeholzer is encouraged throughout all phases of a project: planning, execution, and data reduction/interpretation.



Proteomics and Metabolomics Facility (Wistar)

Type: Core Laboratory

Summary:

The Proteomics and Metabolomics Shared Resource provides high sensitivity proteomics and metabolomics analyses using state-of-the-art mass spectrometry instruments and methods. Consultation with facility staff concerning experimental design and sample preparation is recommended prior to sample preparation to ensure optimal experimental design.

Proteomics services include: 1) quantitative, in-depth global comparisons of sub-proteomes, complete proteomes, and secretomes using integrated ion current, SILAC or TMT labeling; 2) global quantitative comparisons of posttranslational modifications (PTMs) such as ubiquitination, acetylation, or phosphorylation; 3) detailed characterization of individual purified proteins including PTMs; 4) identification of components in protein complexes (e.g. pull-downs) including estimation of stoichiometries (where appropriate); 5) characterization of intact protein and peptide masses using either MALDI-MS or ESI-MS; and 6) HPLC peptide mapping with UV detection.

Metabolomics services include analysis of polar metabolites or lipids extracted from cells, biological fluids, conditioned media, or tissues. Specific services include: 1) targeted relative quantitation of approximately 200 polar metabolites spanning 32 different classes; 2) 13C stable isotope tracer analysis; 3) untargeted polar metabolite quantitative comparisons, and 4) untargeted lipidomics for quantitative profiling of global lipids or acylceramides (after mild saponification), and 5) targeted relative quantitation of free fatty acids, total fatty acids (after saponification), and eicosanoids, including prostaglandins and HETEs. Samples for all these applications are analyzed using the Thermo Q Exactive HF-X mass spectrometer. Metabolites are separated using HILIC chromatography, global lipids and acylceramides are separated on a C30 reversed-phase column, and fatty acids and eicosanoids are separated on a C18 column.



Psychiatric Genomics Consortium

Type: Consortium

Summary:

The purpose of the Psychiatric Genomics Consortium (PGC) is to unite investigators around the world to conduct meta- and mega-analyses of genome-wide genomic data for psychiatric disorders.



Quantitative Proteomics Resource Core (Penn/CHOP)

Type: Core Laboratory

Summary:

The Quantitative Proteomics Resource Core (QPRC) provides investigators access to the most advanced high resolution mass-spectrometry-based proteomics technologies. These approaches are implemented with a broad variety of mass-spectrometry-based experiments to characterize and quantify proteins from complex biological samples.

The Proteomics Core has partnered with the Bioinformatic Laboratory of the PennCHOP Microbiome Program to facilitate proteomic analysis of mixed microbial samples.



Quattrone Nanofabrication Facility

Type: Core Laboratory

Summary:

The Penn Nanofabrication Facility provides hands-on access to micro/nanofabrication equipment. The facility is open to both the Penn community and external users from other universities, industry and national laboratories.



RADCORE (Penn)

Type: Core Laboratory

Summary:

Today, our mission is to provide a support system for coordinators within the Department of Radiology and:

• Build a strong research coordinator team within the Department of Radiology
• Set up a network for research coordinators where assistance can be provided in the orientation of new research coordinators, and in the education of co-workers through the sharing of expertise (ex., MR, CT, and/or PET)
• Gain knowledge and further careers within the Department of Radiology
• RADCORE also houses an IND Support Service that manages a portfolio of regulatory support for investigational diagnostic imaging probes requiring IND or RDRC regulatory approval and support. This service is managed by Kathleen Thomas, whom investigators interested in investigational tracers should contact. See also PET Center for further information about investigational PET imaging probes.



Rader Laboratory

Type: Laboratory

Summary:

The Rader laboratory is focused on two major themes: 1) novel pathways regulating lipid and lipoprotein metabolism and atherosclerosis inspired by unbiased studies of human genetics; 2) factors regulating the structure and function of high density lipoproteins and the process of reverse cholesterol transport and their relationship to atherosclerosis. A variety of basic cell and molecular laboratory techniques, mouse models, and translational research approaches are used in addressing these questions.



Radioimmunoassay and Biomarkers Core (Penn)

Type: Core Laboratory

Summary:

"The assay service has proven essential for current research in the DRC and Penn community. The core used to focus mainly on rat and human insulin, glucagon and C-peptide to a diverse, high-volume and cost-effective service. Over 50 different diabetes and endocrinology-related markers can be assayed.

In conjunction with the Clinical and Translational Research Center (CTRC), we are now offering multiple analyte (multiplex) services. As part of a collaborative initiative, Dr. Collins initiated and established Luminex IS100 multiplex ELISA services. This system uses cell-sorting technology to measure multiple proteins simultaneously. This technology will be of great use for investigators studying transgenic mice, where sample volumes are low. In addition, the multiplex platform allows for screening of human cohorts in disease research particularly of small volume in repeated sampling protocols.

The objectives of the Radioimmunoassay and Biomarker Core includes:

• delivery of new services to existing and new investigators
• development of informatics infrastructure for efficient delivery of service
• engage proactively in outreach to the DRC/PENN research community to enhance efficiency, cost-sharing and increase users of Biomarker Core services."

The assay services listed are not an exhaustive list but rather a list of assay services we have provided in the past. Please contact the RIA/Biomarkers core if you would like to assay for an analyte that is not listed. We can help you find the appropriate kit and provide the assay service.



Raymond G. Perelman Center for Cellular and Molecular Therapeutics

Type: Center



Recruitment, Outcomes, and Assessment Resource (Penn)

Type: Core Laboratory

Summary:

The goals of the Recruitment, Outcomes and Assessment Resource (ROAR) are to develop resources for population and clinical/transitional research that can enhance collaborative, multidisciplinary population research; enable observational, behavioral, clinical translation and interventional studies; and avoid inefficiency in the development and execution of these studies.

The ROAR, which is led by Dr. Karen Glanz, is comprised of two coordinated components: one for Recruitment, Retention and Outreach and a second for Research Implementation.



Regulatory and Clinical Trial Site Services (Penn)

Type: Core Laboratory

Summary:

CAROT is an integral part of the Scheie Eye Institute, one of the oldest and most reputable ophthalmology clinics in the USA. This institute has an established history of successfully executing clinical trials using a diverse patient population.

CAROT offers comprehensive testing facilities to complete most study protocols in compliance with several health authority standards. As a pioneer in the field of gene and cell therapy, CAROT contains unique endpoint measures such as mobility tests, functional magnetic resonance imaging (fMRI) and adaptive optics scanning laser ophthalmoscopy.

CAROT also manages clinical, regulatory and trial site services to guide investigators through the clinical and market authorization process, with speed, accuracy and safety.



Research Ethics Program Core (Penn/CHOP)

Type: Core Laboratory

Summary:

The mission of the Research Ethics Program is to provide investigators, key personnel, and trainees with research collaboration, education, and consultation that address ethical issues in the design and conduct of translational and clinical research. We are primarily engaged in contributing to the CTSA's research ethics educational needs, and we provide consultation services for CTSA and other researchers facing ethical issues in planning or performing their studies. We also have research interests in identifying new and emerging ethical issues in translational research and are looking for collaborative opportunities to better understand this research paradigm.



Research Instrumentation Shop (Penn)

Type: Core Laboratory

Summary:

The Research Instrumentation Shop is non-profit, shared resource machine shop of the University of Pennsylvania, Perelman School of Medicine. Its mission is to assist University faculty in the design and construction of both laboratory and clinical instrumentation. The staff is comprised of mechanical and optical specialists and is experienced with working with scientists to design and construct custom research clinical instrumentation and apparatus.



Research Viral Vector Core (CHOP)

Type: Core Laboratory

Summary:

The Research Viral Vector Core (RVC) provides premium GLP recombinant Adeno-Associated Viral Vectors and Lentiviral Vectors for use in basic research and preclinical studies. A part of the Center for Cellular and Molecular Therapeutics at the Children's Hospital of Philadelphia, the RVC is dedicated to manufacturing top of the line vectors utilizing a fine tuned downstream process recognized internationally in industrial applications and academia. Capable of providing custom vector constructs at a variety of scales, The Research Vector Core offers state of the art technology and support for investigators interested in conducting viral based gene transfer.



Rodent Metabolic Phenotyping Core (Penn)

Type: Core Laboratory

Summary:

Core Aims:

The mission of the Rodent Metabolic Phenotyping Core is to provide the necessary resources and expertise to allow investigators to perform state-of-the-art studies of metabolism in rodent models.

The Specific Aims of the RMPC are to:
Provide access to state-of-the-art resources and expertise for rodent metabolic studies. Rodents have served as important models for human diseases and our understanding of diabetes, obesity and other metabolic disorders has increased tremendously as a result of dietary and genetic manipulations in these animals. In many cases, the standard techniques for phenotyping rodents are not accessible to individual investigators because they require expert surgical skills and facilities for infusion and handling of radioactive isotopes (e.g., clamps) or prohibitively expensive equipment that requires training and expertise to maintain (e.g., indirect calorimetry). By providing these services, the RMPC reduces duplication of expensive equipment and personnel, and ultimately limits research costs. These goals are well aligned with the overall mission of the DRC to promote and facilitate research into diabetes and metabolism.

Provide individualized guidance and assistance for designing and implementing in vivo metabolic assays. A key function of the core is to make metabolic assays accessible to investigators who would otherwise not be able to perform such studies. In many cases, this involves providing guidance as to the selection of appropriate assays within the suite of services offered by the core, and we are happy to do this.

Promote interactions and synergy among cores of the DRC. The RMPC fosters close interactions with the Radioimmunoassay/Biomarkers, Islet Cell Biology, Transgenic and Chimeric Mouse, Functional Genomics, Viral Vector, and Metabolomics cores in order to optimize metabolic studies in rodent models.



Roos Laboratory

Type: Laboratory

Summary:

Studies in the Roos laboratory employ modern cell biological, molecular genetic, biochemical/pharmacological, immunological and genomic/bioinformatic techniques to study protozoan parasites, eukaryotic evolution, and the biology of host-pathogen interactions. At present, our primary focus is on the phylum Apicomplexa, including Plasmodium (the causative agent of malaria) and Toxoplasma (notorious as a congenital pathogen, an opportunistic infection associated with AIDS and other immunosuppressed conditions, and a biosecurity threat to public water supplies). We work on these organisms both because of their clinical and veterinary importance, and for the perspectives that they provide on eukaryotic biology and evolution.



Ross Laboratory

Type: Laboratory

Summary:

The use of both genetic and molecular approaches to the study of virus-host interactions in vivo provides us with insight into the processes that determine the susceptibility and resistance of individuals to viral infection and virus-induced cancer (approximately 20% of human cancers). Our interests lie in determining why viruses infect specific hosts and how in turn, host genes confer resistance to this infection. Our lab studies 2 different types of viruses, retroviruses like mouse mammary tumor virus (MMTV) and murine leukemia virus (MLV) which cause cancer in mice, and the new world arenaviruses, which cause hemorrhagic fever in humans.

The genetics of susceptibility is easily studied with naturally-occurring pathogens in inbred and genetically-manipulated mice. MMTV is an endemic oncogenic retrovirus that has been an infectious agent in mice for > 20 million years, while MLV has been in mice ~ 3 million years. Infectious MMTV is passed from mothers to offspring through milk and first spreads in lymphoid cells before infecting mammary epithelial cells; MLV is probably also milk-transmitted. These viruses thus serve as models for the human milk-borne retroviruses HIV-1 and HTLV1. MMTV causes breast cancer and MLV causes lymphomas when the viral genome inserts next to cellular oncogenes by activating their expression. Our studies focus on understanding the mechanisms that determine susceptibility to MMTV infection and virus-induced mammary tumors and we have identified a number of genes and mechanisms that confer resistance to infection by MMTV and MLV.

Genes of the immune system play a major role in susceptibility to infection, and one gene which we recently discovered is involved in the control of MMTV and MLV infection is Apobec3. All mammals encode Apobec3 genes which play a role in intrinsic cellular immunity to a number of viruses, including human immunodeficiency virus type 1. APOBEC3 proteins are packaged into virions and inhibit retroviral replication in newly infected cells, at least in part by deaminating cytosine on the negative strand DNA intermediates. We found that mouse APOBEC3 protein is packaged into MMTV and MLV particles in vitro and dramatically reduces viral titers. Most importantly, APOBEC3 knockout mice are more susceptible to MMTV and MLV infection compared to their wild type littermates. These findings indicate that the APOBEC3 provides protection to mice against retroviral infection and represent the first demonstration that it functions during retroviral infection in vivo. We are currently studying how genetic variation in the mouse APOBEC3 genes affects their ability to inhibit infection and whether APOBEC3 can be used as an anti-retroviral therapeutic target.

We have recently extended our studies to new world arenaviruses like Junín virus. These viruses are endemic in new world rodents in South America and are spread to humans via aerosolization. Interestingly, both Junín virus and MMTV use transferrin receptor 1 (TfR1) for entry. We are currently studying how MMTV and Junín virus use TfR1 to enter cells and how the iron metabolic pathway intersects with infection by these viruses. In addition, we are studying different host genes that confer resistance or susceptibility Junín virus, and whether polymorphisms in these genes in humans alter infection. These studies will help us identify host molecules involved in cell- and disease-tropism and help us to develop new anti-viral therapies.



Ryeom Laboratory

Type: Laboratory

Summary:

My laboratory is particularly interested in understanding how angiogenesis inhibitors act to limit endothelial cell activation and angiogenesis, and how they might be used therapeutically to treat cancers. Specific projects include:

i) Understanding why Down syndrome individuals are protected against cancer and the role of the calcineurin inhibitor, DSCR1 in suppressing VEGF-mediated angiogenesis;

ii) Identifying new cell extrinsic tumor suppressor functions of p53 and p19ARF: regulation of the endogenous angiogenesis inhibitors thrombopsondin-1 and endostatin;

iii) Investigating a novel role for the endogenous angiogenesis inhibitor thrombospondin-1 in mediating oncogene-induced senescence;

iv) Immune surveillance and the role of the endogenous angiogenesis inhibitors thrombospondin-1 and endostatin in tumor immunity.



Scanzello Laboratory

Type: Laboratory



Schizophrenia Research Center

Type: Center

Summary:

The Schizophrenia Research Center provides clinical, research and educational opportunities and has multiple collaborations across the US and abroad. A major effort is to identify young people who are at risk for psychosis and intervene early to restore functioning.



School of Arts & Sciences

Type: School



School of Dental Medicine

Type: School



School of Engineering and Applied Science

Type: School



School of Veterinary Medicine

Type: School



Shin Laboratory

Type: Laboratory

Summary:

My lab is interested in uncovering molecular and cellular mechanisms used by the host to defend itself against bacterial pathogens and how bacterial pathogens evade or manipulate host defenses.

We utilize the intracellular bacterial pathogen Legionella pneumophila, causative agent of the severe pneumonia Legionnaires' disease, as our primary model. Legionella has evolved numerous mechanisms for modulating eukaryotic processes in order to facilitate its survival and replication within host cells. The ease with which Legionella can be genetically manipulated provides a powerful system for dissecting immune responses to bacteria that differ in defined virulence properties and for elucidating mechanisms of bacterial pathogenesis.

A major focus of our lab involves understanding how the immune system distinguishes between virulent and avirulent bacteria and tailors appropriate antimicrobial responses against virulent bacteria. One key immune pathway involves the inflammasome, a multi-protein cytosolic complex that activates the host proteases caspase-1 and caspase-11 upon cytosolic detection of bacterial products. These caspases mediate the release of IL-1 family cytokines and other inflammatory factors critical for host defense, but overexuberant activation can lead to pathological outcomes such as septic shock. We are currently pursuing how inflammasomes are differentially regulated in mice and humans in response to bacterial infection, as mice and humans differ in several key inflammasome components.

We are also uncovering how the immune system successfully overcomes the ability of pathogens to suppress host functions critical for immune defense. We recently found that infected macrophages circumvent the ability of Legionella to block host translation by synthesizing and releasing key cytokines that instruct bystander uninfected cells to generate an effective immune response. We are defining additional mechanisms that mediate communication between infected and bystander cells and promote eventual control of bacterial infection. We also examine immune responses to other bacterial pathogens with the goal of identifying shared and unique features of innate immunity and bacterial virulence. Insight into these areas will advance our understanding of bacterial pathogenesis, how the innate immune system distinguishes between virulent and avirulent bacteria and initiates antimicrobial immunity, and will ultimately aid in the design of effective antimicrobial therapies and vaccines.



Shindler Laboratory

Type: Laboratory

Summary:

The Shindler laboratory is studying animal models of optic nerve injury, with a focus on optic neuritis, an inflammatory disease of the optic nerve that often occurs as part of the central nervous system inflammatory neurodegenerative disease multiple sclerosis (MS). Episodes of inflammation can lead to permanent damage and loss of nerve cells, resulting in decreased vision and other neurological dysfunction in MS patients. Studies in the lab aim to expand our understanding of the mechanisms of nerve cell damage in this disease, and potential new therapies are being evaluated to prevent nerve damage and preserve vision.
In the animal model EAE, mice immunized with specific myelin antigens, develop inflammation, loss of myelin, and nerve damage in the brain, spinal cord, and optic nerves, similar to MS patients. Over two thirds of eyes in EAE mice develop optic neuritis, and significant numbers of retinal ganglion cells die following an acute attack of optic neuritis. While EAE provides an important autoimmune disease model of optic neuritis, the underlying cause for optic neuritis in patients is not known, and some evidence suggests that optic neuritis can be induced in part by inflammation following viral infection. We therefore have also characterized optic neuritis in a viral-induced animal model of multiple sclerosis triggered by infection with mouse hepatitis virus.
One class of compounds that has shown excellent promise as a potential neuroprotective therapy in these optic neuritis models is activators of SIRT1, a deacetylase involved in cell stress responses and cell survival. Treatment of EAE mice with several different SIRT1 activators significantly attenuates the loss of retinal ganglion cells in eyes with optic neuritis. SIRT1 activators also reduce damage to spinal cord neurons and promote improved neurological recovery from EAE. These novel therapies have tremendous potential for preventing neurodegeneration in optic neuritis and MS patients, and may have the ability to prevent damage to retinal ganglion cells and other neuroretinal cells in a variety of eye diseases. Ongoing studies are examining the molecular mechanisms by which SIRT1 activators prevent neuronal damage. Using the optic neuritis models characterized in the lab, other potential neuroprotective therapies will also be tested for their ability to prevent retinal ganglion cell death.



Singh Center for Nanotechnology (Penn)

Type: Core Laboratory

Summary:

The Singh Center is centered around four major research facilities, all featuring state-of-the-art equipment for nanoscale characterization, measurement, and fabrication: the Quattrone Nanofabrication Facility, the Nanoscale Characterization Facility, the Scanning and Local Probe Facility, and the Material Property Measurement Facility.

The following connected sections comprise the major components of the building:

• A 10,000 square-foot next-generation Cleanroom Facility for micro/nanofabrication, including tooling for nanoscale and soft materials integration and a novel nano/bio bay serves as the home of the Quattrone Nanofabrication Facility.

• A 10,000 square-foot advanced underground facility designed for temperature stability and excellent isolation from vibrational, acoustic, and electromagnetic noise serves as home of both the Nanoscale Characterization Facility and the Scanning and Local Probe Facility.

• A Property Measurement Facility provides state-of-the-art measurement capabilities in magnetometry, optics, electrical and thermal transport.

• 18,000 net square feet of space for other shared facilities and general laboratories housed in an adjoining three story structure; a glass-enclosed galleria with views into the cleanroom; conference rooms; and a forum for meetings.

The building houses a large suite of high-performance equipment for nanotechnology research, including electron and scanning probe microscopy, cleanroom tools, electron beam lithography, and several materials synthesis and characterization instruments.

The multi-user facilities are vital to the research and educational programs at Penn and are leveraged by partner institutions and local industry within the Mid-Atlantic region. Unifying these central resources fosters the exchange of scientific ideas and the development of nanoscale science and technology, brings together crosscutting capabilities and the staffing to support these tools, and provides the modern infrastructure necessary to establish a regional center for nanotechnology.



Small Animal Imaging Facility (Penn)

Type: Core Laboratory

Summary:

The SAIF combines state-of-the-art instrumentation and a nationally recognized staff to assist investigators with a wide range of imaging based experimental approaches. The SAIF currently provides a comprehensive suite of imaging modalities including:
• Magnetic resonance imaging (MRI) and spectroscopy (MRS)
• Optical imaging (including bioluminescence, fluorescence, and near-infrared imaging)
• Computed tomography (CT)
• Positron emission tomography (PET)
• Single photon emission computed tomography (SPECT)
• Ultrasound (US)

In addition, dedicated housing is available for mice and rats undergoing longitudinal imaging studies. Ancillary facilities and resources of the SAIF are devoted to chemistry, radiochemistry, image analysis and animal tumor models, including assistance with animal handling.



Small Animal Imaging Facility Core (CHOP)

Type: Core Laboratory

Summary:

When you’re in need of radiological imaging for your research, look no further than the Small Animal Imaging Facility at Children’s Hospital. We’re a specialized and designated Core facility providing multi-modality radiological imaging for mice and rats. We provide a clean and state-of-the-art environment to conduct the imaging required for your longitudinal studies.



Small Animal Imaging Facility: MRI/MRS Sub-Core (Penn)

Type: Core Laboratory

Summary:

These studies are performed on a wide range of biological samples including small animals (cats, rabbits, rats, mice), tissue specimens, cultured cells and tissue extracts.

This facility includes a conveniently located, well equipped surgery room used for preparing the animals for MR exams and a wide assortment of supporting equipment, i.e. anesthesia machines, MR compatible vital signs monitors (SA Instruments), infusion pumps (Harvard), heating pads, etc. A variety of perishable supplies used in animal preparation are also provided by the facility.



Small Animal Imaging Facility: Nuclear Medicine Sub-Core (Penn)

Type: Core Laboratory

Summary:

The PET Center operates various PET, SPECT, and CT scanners for different research and scanning needs.



Small Animal Imaging Facility: Optical/Bioluminescence Sub-Core (Penn)

Type: Core Laboratory

Summary:

The Optical/Bioluminescence Sub-Core of the SAIF provides the capability to perform cellular and molecular non-invasive in-vivo bioluminescence, near-infraredfluorescence and Cerenkov imaging.

The instrumentation allows sensitive, non-invasive molecular imaging for a variety of applications including detection and quantification of various bioluminescent or fluorescent reporter-expressing cells or tissues (in culture or in small animals).

The facility currently houses a Perkin Elmer IVIS Lumina II, two LI-COR Pearl Impulse Imagers and two Perkin Elmer IVIS Spectrums. The Facility offers assistance with experimental design, regulatory approval, troubleshooting, data management, analysis and display.



Small Animal Imaging Facility: Ultrasound Sub-Core (Penn)

Type: Core Laboratory

Summary:

The Ultrasound Sub-Core of the SAIF offers an array of research services for pre-clinical research including quantitative image analysis and consultation.

Our state-of-the-art ultrasound scanners are available as a resource for conducting your research studies. This rich resource for ultrasound imaging is available at nominal hourly fees for various categories of study.

Ultrasound Research Services provides services to a host of groups working on diverse projects such as the measurement of angiogenesis, vascularity, tissue elasticity, the effects of various pharmaceuticals on these measures and more. Such research encompasses a variety of clinical areas including radiology, oncology, cardiology, gynecology, and hematology, among others.



Smell and Taste Center

Type: Center

Summary:

The University of Pennsylvania Smell and Taste Center was founded in 1980 as the first NIH-funded Clinical Research Center in the United States devoted to the senses of taste and smell, and has achieved worldwide prominence for both its research and clinical activities.

The ability to taste and smell is critical for the survival of most organisms and plays a key role in their nutrition and social behavior. In humans, these senses determine the flavor and palatability of foods and beverages and serve as an early warning system for the detection of toxic vapors, fire, and spoiled foodstuffs. Indeed, decreased smell function is one of the reasons why elderly persons succumb more often to accidental natural gas poisoning and why they frequently complain that food lacks flavor. In a comprehensive study of 750 consecutive patients evaluated at the Center, 68% viewed their dysfunction as affecting their quality of life, 56% noted that the problem altered their daily living and/or psychological well-being, and 46% reported that the problem changed either their body weight or appetite.

It is now well established that the sense of smell is altered in a number of neurological disorders, including Alzheimer's disease, epilepsy, head trauma, Korsakoff's psychosis, Huntington's disease, schizophrenia, and Parkinson's disease. Despite these findings, the chemical senses have received, until recently, comparatively little attention on the part of scientists and physicians. In response to this need, the University of Pennsylvania Smell and Taste Center was founded.

The Center has three primary goals: first, to provide clinical evaluation, treatment, and counseling for patients experiencing chemosensory deficits; second, to provide facilities for an intellectual focus for research in basic and applied aspects of chemosensation; and third, to provide training for students, doctoral level scientists, and others interested in chemoreception science.



Speck Laboratory

Type: Laboratory

Summary:

The work in my laboratory is centered on the core binding factor (Runx1-CBFβ) and its roles in hematopoietic stem cell (HSC) formation and function. We study how HSCs form in the embryo, the step at which HSC formation is dependent on Runx1-CBFβ, the biochemical functions of Runx1-CBFβ, and how mutations in the genes encoding Runx1-CBFβ generate pre-leukemic stem cells. A more recent line of investigation is to determine the role of inflammatory signaling in HSC formation.



Stambolian Laboratory

Type: Laboratory

Summary:

Age-related macular degeneration (AMD) in African Americans
Much work has been accomplished on the genetics of AMD in Caucasians to the point that we currently have 10 well-defined loci identified by genome-wide association studies. While we have had amazing successes in Caucasians for AMD, very little has been done in African Americans probably because the disease is much rarer in this group. A GWAS study is not plausible in African Americans because of the decreased frequency of AMD. Therefore, we are using new DNA sequencing technology to identify the reasons that AMD is less severe in African Americans. We have collected a large cohort of African American cases and controls and are currently utilizing targeted next-gen sequencing to identify protective haplotypes that might offer an explanation of resistance to AMD development in African Americans. If these protective SNPs are found, they could serve as new potential drug targets.

Expression differences between normal and AMD eyes
We have been very successful in the identification of susceptibility genes for AMD through GWAS. The next horizon is to understand the expression differences between eyes with AMD and eyes that are normal. To identify differential expression between normal and AMD eyes, we have collected a series of postmortem eyes with and without AMD. RNA and DNA has been isolated from these eyes for the purpose of RNA sequencing and genotyping. Our underlying hypothesis is that there is a difference in normal transcript expression between normal and AMD eyes or a defect in alternative splicing that predisposes to AMD. The RNA-Seq data is being analyzed for expression differences as well as for alternative splicing defects with our new algorithm developed in the lab, SplicePL. Expression will also be correlated with known AMD risk SNPs to assess SNP potential to influence expression.

Genetics of AMD in the Amish
The genetics of AMD has been well studied in unrelated case-control Caucasian cohorts. However, very little has been done to identify genes in families. To that end, we have screened 3000 Amish individuals over the age of 50 years living in Lancaster County, Pa for various eye diseases including AMD. Every subject visiting the Amish clinic received a full eye exam, an epidemiology questionnaire, and a fundus photo along with the donation of a blood sample. We currently have DNA on all these individuals. Our collected Amish cohort currently consists of 750 nuclear families and has tremendous power to identify rare variants. We are currently preparing to do whole exome sequencing in selected families for the purpose of rare variant discovery in AMD. Discovery of rare AMD variants of large effect will have potential impact in the general population.

Genetics of Refractive Error
Refractive error is an abnormality of the eye that results in myopia, hyperopia or astigmatism. It is the leading cause of blindness worldwide. Most studies to date have centered on family linkage studies. Our lab is currently leading an international consortium to identify the genes for refractive error through GWAS and next-gen sequencing. We have just completed a GWAS of 7000 individuals with a few significant hits. We now seek to understand how these significant GWAS SNPs lead to the development of refractive error. We are currently utilizing bioinformatic tools to characterize the function of these SNPS and will move to functional studies in zebrafish after exhausting our bioinformatic tools. In addition, we have collected DNA from large families transmitting myopia and are preparing to perform whole exome sequencing to identify rare variants in these families.

Modeling of Human Disease in Zebrafish
We have developed a system in the lab to assess the refractive error phenotype in zebrafish embryos. Current experiments include knockdown and overexpression of various potential refractive error genes as a validation to the GWAS hits we have identified. Validated results in a zebrafish model will be followed by RNA-Seq of the mutants to provide a framework for a systems biology approach to understanding refractive error.

Characterization of Mouse Models for Microphthalmia.
Over the past few years we have been characterizing a mouse model for microphthalmia (Tcm), a phenotype identified in a colony of X-ray irradiated mouse. Genetic mapping refined the causative locus to a 1.3Mb region on mouse Chromosome 4 which contains 5 genes. Further molecular characterization is underway in our lab to identify the founder mutation responsible for the microphthalmic phenotype.



Statistical Genetics and Genomics Laboratory

Type: Laboratory

Summary:

Welcome to the Hongzhe Li's Statistical Genetics and Genomics Laboratory. Our lab is within the Department of Biostatistics and Epidemiology at the University of Pennsylvania Perelman School of Medicine and is conducting both methodological and collaborative research in the area of statistical genetics/genomics and metagenomics, with the goal of understanding the genetic and genomic bases of complex biological systems, including initiation and development of complex human diseases.

Working with Penn collaborators, we are currently developing methods for analysis of high-throughout genomic data. My application areas include genome-wide association studies of neuroblastoma, eQTL analysis of human heart failure data and metagenomic data analysis of human gut microbiome. In the area of statistical genomics, our recent research has focused on developing statistical and computational methods for analysis of genetic pathways and networks and novel methods for analysis of eQTL data. These collaborations have led to publications in Science, Nature, Nature Genetics, Developmental Cell, PNAS etc and have motivated many of our methodological research projects.

The focus of our methodological research is to formulate the problems in genetics and genomics as interesting statistcal problems and to develop novel statistical models and computational methods to solve these problems. We are in particuarly interested in developing high dimensional statistical methods for analysis of genomic data.



Stem Cell & Xenograft Core (Penn)

Type: Core Laboratory

Summary:

The Stem Cell and Xenograft Core (SCXC) is a comprehensive resource laboratory that integrates a viable tissue bank of normal human hematopoietic cells and hematopoietic malignancies with a full range of xenograft services.

The SCXC is committed to facilitating and promoting translational research involving viable primary human hematopoietic tissues. Our core offers adult whole bone marrow from healthy donors and umbilical cord blood. Mononuclear and CD34+ cells from normal bone marrow and cord blood are available, and other cell fractions can be provided by arrangement. We maintain a large tissue bank of cells from hematopoietic malignancies including AML, ALL, CML, MDS and MPDs. All samples are fully annotated and frozen as viable cells. We also offer access to an immunomagnetic cell sorter (Miltneyi AutoMacs). Expertise in primary human hematopoietic stem/progenitor and leukemic cell culture and manipulation is available. For consultation or questions, please contact Martin Carroll.

The SCXC offers a wide variety of xenograft services from training to full-service experiments. The Core maintains a large breeding colony of immune-deficient (NSG) mice for users xenograft studies. We also offer human immune system (CD34-transplanted) NSG mice for a wide variety of studies ranging from gene therapy to HIV. Experimental animals are housed in dedicated BSL-2 animal barrier space equipped for whole body irradiation and all necessary procedures and survival surgeries. Currently established xenograft models include normal human CD34 and leukemia engraftment, human iPS and ES-derived teratomas, human skin grafting, orthotopic human ovarian, hepatic and pancreatic tumor cell injections, renal capsule implantation. We also offer access to a dedicated optical/fluorescence (IVIS Spectrum) imaging system located within the Core's BSL-2 space. For consultation or questions, please contact Gwenn Danet-Desnoyers.

Pennkey required to request services, contact to acquire a guest Pennkey if needed.



Steven Thomas Laboratory

Type: Laboratory

Summary:

Broadly, the lab studies the development and physiology of the mammalian brain. One goal is to define the systems that contribute to specific behaviors, and to understand the mechanisms that underlie these behaviors. Such knowledge may ultimately permit the prevention and treatment of mental illness. Gene-targeting allows the analysis of specific genetic alterations in the context of the whole organism. The ability to add, delete or modify genes is particularly useful in the analysis of complex organ systems such as the brain, where half of all genes are thought to be uniquely expressed.

The lab focuses on the adrenergic nervous system in which norepinephrine (NE) and epinephrine are the classic neurotransmitters. By genetically eliminating the biosynthetic enzyme for NE, dopamine beta-hydroxylase (DBH), mutant mice (Dbh-/-) that completely lack NE and epinephrine were created. These mice are conditional mutants in that NE can be restored to the adrenergic terminals by supplying a synthetic amino acid precursor of NE, L-DOPS. The lab is pursuing several fundamental observations that resulted from the creation of these mutant mice. These include the roles of NE in learning and memory, as well as the neuronal physiology and signaling that underlie these effects. They also include the role of NE in the effects of stress. For each of these, potentially important interactions with other transmitters and hormones is also being explored. Finally, Dr. Thomas is pursuing several novel genetic approaches for producing complementary models to the Dbh-/- mice toward a more complete understanding of CNS adrenergic function.



Systems Biology

Type: Laboratory

Summary:

The Diamond laboratory has worked on a variety of numerical problems motivated by reaction-transport processes in cardiovascular biology:
-- Moving front systems in eroding biopolymers
-- Two-body hydrodynamic collisions
-- Heterotypic aggregation-fragmentation processes
-- Stochastic kinetics during platelet and neutrophil adhesion
-- Stochastic kinetics of blood coagulation
-- P2Y1 - Phosphoinositides Model
-- Platelet-Plasma Clotting Model
-- Pairwise Agonist Scanning
-- LKMC for reactive platelet flow and deposition



Ted Abel Laboratory

Type: Laboratory

Summary:

The primary focus of research in the Abel lab is to understand the cellular and molecular mechanisms of long-term memory storage with a focus on the mammalian hippocampus. One of the hallmarks of long-term memory storage is that it requires the synthesis of new genes and new proteins, which act to alter the strength of synaptic connections within appropriate neuronal circuits in the brain. How are the various signals acting on a neuron integrated to give rise to appropriate changes in gene expression? How are changes in gene expression maintained to sustain memories for days, months and even years? In our lab, we have focused on transcriptional co-activators such as CREB-binding protein (CBP) and p300, leading us to investigate the effects of histone acetylation and other epigenetic modifications in memory storage. Increasing histone acetylation pharmacologically by inhibiting histone deacetylase (HDAC) enzymes during memory consolidation enhances long-term memory. Of particular importance is the identification of genes regulated by epigenetic mechanisms during memory consolidation and after HDAC inhibition using next-generation sequencing technology. Signals from synapses drive the transcriptional processes that are required for memory storage. A major challenge in the study of these synaptic signals is how the pathway specificity of synaptic plasticity is maintained in the face of diffusible second messengers, such as cyclic AMP (cAMP), and diffusible proteins, such as the catalytic subunit of protein kinase A (PKA). We are investigating the role of A-kinase anchoring proteins (AKAPs), which restrict PKA to specific subcellular locations, to define how signal transduction pathways in neurons are able to exhibit spatial specificity.

We are also investigating processes that can modulate the consolidation of long-term memory. For example, the biological function of sleep has remained elusive, but studies suggest that one function of sleep may be to mediate memory storage. First, sleep appears to facilitate the formation of hippocampus-dependent memories, and sleep is increased following training. Second, sleep appears to be regulated by many of the same molecular processes that contribute to memory storage, including the transcription factor cAMP response element-binding protein (CREB) and the PKA signaling pathway. By using conditional genetic approaches and gene expression studies, we are striving to elucidate the machinery underlying sleep/wake regulation and define the role of sleep in the consolidation of long-term memory. Our studies also reveal that sleep deprivation impairs memory consolidation and synaptic plasticity by impairing signaling through the cAMP pathway.

Cognitive deficits accompany many neurological, psychiatric and neurodevelopmental disorders. We are interested in determining how our knowledge of the cellular and molecular mechanisms of synaptic plasticity and memory storage can help us understand the cognitive deficits that are seen in patients with schizophrenia, autism and intellectual disability. Recent evidence suggests that disturbances in specific intracellular signaling pathways may contribute to schizophrenia. Studies in humans indicate that activity within the cAMP/PKA signaling pathway may be increased in the central nervous systems of schizophrenia patients, and our work suggests that this pathway plays a role in endophenotypes of schizophrenia in mice. With these translational approaches, we hope to identify novel targets for the development of new therapeutics to treat psychiatric and neurodevelopmental disorders.



The Children's Hospital of Philadelphia

Type: Hospital



The Children's Hospital of Philadelphia Research Institute

Type: Institute

Summary:

The Children's Hospital of Philadelphia has a long and distinguished tradition of research that has spanned more than 80 years and positioned the Hospital as a world-renowned pediatric research center. The many research breakthroughs at Children's Hospital have improved the lives of countless children not only in the Philadelphia region, but throughout the world.

Research at the Hospital had modest beginnings. The Hospital established its first research laboratory in 1922 as a single room in its basement. By 1931, the Hospital founded the “Society of Pediatric Research” for its expanding base of investigators, who conducted their experiments wherever space permitted.

These beginnings gained significant momentum in 1972 when Children's Hospital designated 70,000 square feet to research and established the Research Institute, the first pediatric research department in the country.

Today, the Hospital's entire research enterprise is organized under the aegis of the CHOP Research Institute and constitutes a separate organizational, administrative and financial entity within the Hospital.



The Genotyping and DNA/RNA Analysis Core (Monell)

Type: Core Laboratory

Summary:

This Research Core provides training and research support in genotyping and quantification of nucleic acids. The Core facility has equipment needed to genotype DNA samples and to measure nucleic acid concentrations in isolation or in tissue samples.



The Orphan Disease Center

Type: Center

Summary:

Mission

The Orphan Disease Center will develop transformative therapies using platform technologies that can be deployed across multiple rare diseases. We will emphasize disorders with substantial unmet need independent of their incidence and will strive to assure access to patients of all populations.

Impact

Each type of orphan disease affects such a small subset of the population, so the need for research and funding in this area is largely unmet. Our Center, the first of its kind, works closely with patient groups and foundations, pharma and biotech, and the academic community. We bring a unique set of programs to the table, enabling us to add value at any stage - from building the initial knowledge base to enabling therapeutic development. Through our grants, Programs of Excellence, International Patient Registries, Jump Start programs, and a number of new initiatives, the ODC seeks to drive therapeutic development for rare diseases. We help identify and fund the most promising therapeutics while also tackling obstacles present in rare disease drug development.



The Wharton School

Type: School

Summary:

Wharton is changing the way business is done. Our faculty, students, and alumni generate big ideas, back them up with incisive analysis, and turn them into ingenious solutions that work. We educate, inform, and inspire the leaders who are meeting the world’s complex challenges, advancing business practice, and driving economic growth at a global scale.



The Wistar Institute

Type: Institute

Summary:

The Wistar Institute is the nation’s first independent institution devoted to medical research and training. The Wistar Institute has evolved from its beginnings as an anatomical teaching museum to its present-day status as an international leader in basic biomedical research.

In 1972, The Wistar Institute was designated a National Cancer Institute Cancer Center in basic research—a distinction it holds to this day.

Wistar discoveries have led to the development of vaccines for rabies, rubella, and rotavirus, the identification of genes associated with breast, lung, and prostate cancer, and the development of monoclonal antibodies and other significant research technologies and tools.



Thomas Jongens Laboratory

Type: Laboratory

Summary:

In our lab we study two cognitive disorders: Fragile X Mental Retardation and Alzheimer's disease. To study these disorders we utilize Drosophila models. These models are mutants of the Drosophila homologues of the humans genes associated with these disorders. With these models we are investigating the biochemical functions and biochemical pathways affected by the loss of the disease related proteins that cause phenotypes that are similar to symptoms display by patients of these diseases (see below). Our goals are to gain insight into the underlying causes of the respective disease symptoms as an approach to develop therapeutic strategies to treat these disease as well as to learn more about the basic mechanisms required for normal learning and memory.



Tissue Processing Laboratory

Type: Core Laboratory

Summary:

The Penn Dental Medicine Tissue Processing Laboratory is located in Room 429 of the Levy Building. The laboratory services, available to Penn Dental Medicine researchers as well as other University and outside investigators, include tissue processing; H&E staining, trichrome, and other staining; creation of frozen sections; and deparaffinization. The laboratory also features a cryostat for use by investigators within Penn Dental Medicine; cryostat training is available for a fee (see below).
Investigators requiring the services of the Tissue Processing Laboratory should contact the facility to arrange a meeting to set up the appropriate protocols. Special handling, specimen orientation, and any unique aspects of the tissue being processed will be discussed at that time; in some instances, it may be advantageous for the investigator to be present initially when the specimens are being oriented in the hot paraffin prior to the actual sectioning.



Transgenic Core (CHOP)

Type: Core Laboratory

Summary:

When it comes to using a mouse or rat genome to study human disease, you need the best experimental model available to advance your research and propel discovery. That’s where we come in. The Transgenic Core at Children’s Hospital Research Institute can build you complex mouse or rat models, genetically manipulating the mouse or rat genome to meet your specific research needs. This is accomplished by using cutting-edge and classical genetic engineering approaches. We have successfully created over 40 mouse lines using the CRISPR system, and more recently created our first CRISPR Knockout rat line.

The Transgenic Core is a service sponsored by the CHOP Research Institution to enable investigators to drive cutting-edge basic and bench-to-bedside research. The mission of the Core is to provide a cost-effective fast method for generation and preservation of genetically altered mice for the research community.



Transgenic and Chimeric Mouse Facility (Penn)

Type: Core Laboratory

Summary:

The purpose of the Transgenic & Chimeric Mouse Facility is to provide a centralized service to efficiently produce transgenic mice for basic research. This should result in reduction in effort and cost to participating investigators. The facility is located on the basement level of the Clinical Research Building. This facility consists of an animal room and several injection rooms. The injection rooms are fully equipped to carry out the entire procedure of making transgenic mice. The animal room provides housing and breeding space for the mice involved in the transgenic projects. The facility uses sterile food and water as well as autoclaved cages and bedding; all cages are of the microisolator type to limit the spread of colony infection. The entire facility is located behind a microbiologic barrier where admittance is strictly limited and all personnel must wear sterile coveralls, gloves, hats, masks, and boots.



Translational Biomarker Core (Penn)

Type: Core Laboratory

Summary:

This core provides sophisticated analytical services based on liquid chromatography-mass spectrometry.



Translational Core Laboratories (CHOP)

Type: Core Laboratory

Summary:

The Translational Core Laboratory (TCL) provides laboratory testing and specimens (mostly bodily fluids) processing for patient-orientated clinical research as well as preclinical animal studies. We are the only core lab that hosts clinical-grade automated analyzers. Your "one-stop" immunoassay provider, the TCL analyzes protein, peptide, hormone, and nucleic acid biomarkers.



Translational and Correlative Studies Laboratory

Type: Laboratory

Summary:

Projects in the Translational Correlative Studies Laboratory (TCSL) focus on the development and application of cutting-edge biomarker and correlative research studies in the context of both clinical and translational studies to support clinical trials of novel immune-based therapies to target cancer and infectious disease.



Transmission Electron Microscope

Type: Core Laboratory

Summary:

The Penn Dental Medicine Transmission Electron Microscopy Facility features the H-7650, Hitachi’s latest transmission electron microscope developed specifically for applications in research fields such as biology, medicine, polymers, and other advanced materials. Allowing high-contrast, low-dose image observation, the H-7650 is optimized to reduce specimen damage associated with typical electron microscopy observation. A high-sensitivity digital camera integrated with the microscope enables images to be recorded, stored, filed, or transferred with efficiency and ease.

The instrument has the capability to generate automatic electron tomography with top-quality 3D reconstruction. Most functions are automated and computer controlled, allowing the stage and its positioning to be rapidly recalled, simplifying observation of specimens. The advanced lens system permits low magnification/wide field of view/high contrast image observation as well as high magnification imaging.

Other features include:
-- Cryo attachment – permitting frozen protein specimens to be observed without staining for tomographic analysis of protein structure and conformation.
-- Oxford Instruments Energy Dispersion X-ray analysis unit – permitting quantification of elements within specimens.

This state-of-the-art instrument is a part of the imaging resources at Penn Dental Medicine, which includes the necessary ancillary instruments within the Tissue Processing Laboratory required for the processing and cutting of thin sections suitable for transmission electron microscopy.



Trojanowski Laboratory

Type: Laboratory

Summary:

Research currently centers on molecular mechanisms of neuron dysfunction, degeneration and death in normal aging and in neurodegenerative diseases (Alzheimer's and Parkinson's disease, frontotemporal dementias with/without parkinsonism, motor neuron disease, etc.). This research uses immunological, biochemical, genetic, molecular and morphological methods to study human CNS and PNS tissue samples (postmortem or surgical), cell lines, synthetic proteins, and transgenic models of neurodegenerative diseases. Dr. Trojanowski is involved in collaborative initiatives between PENN Medicine and the University of Pennsylvania School of Nursing to advance drug discovery, clinical research, and patient care related to Alzheimer’s disease and the Alzheimer's Disease Neuroimaging Initiative (ADNI) to test whether serial magnetic resonance imaging, positron emission tomography, other biological markers, and clinical and neuropsychological assessment can be combined to measure the progression of mild cognitive impairment (MCI) and early Alzheimer's disease.



U.S. Food and Drug Administration

Type: Government Agency



UPenn Prevention Research Center

Type: Center



Ultrasound Research Laboratory (Penn)

Type: Core Laboratory

Summary:

The goals of the research laboratory are:

• To develop new ultrasound technologies and clinical applications
• To bridge the gap between technology and clinical applications
• To provide ultrasound imaging resources to other research groups within the Penn community and in other institutions

The laboratory consists of a core group of scientists, sonographers and technicians with expertise in ultrasound technology and computer programming. This group works with clinicians in multiple specialties; including radiologists, cardiologists and surgeons. Ultrasound Research Services, an arm of the laboratory, furnishes a state-of-the-art ultrasound scanner dedicated to research and serves the research community. There is a full-time sonographer and a part-time radiologist on staff to conduct clinical and pre-clinical imaging.

The research laboratory has been a valuable resource to several groups working on diverse projects. These include studies involving the measurement of angiogenesis, vascularity, tissue elasticity, contrast agents, and the effects of various physical and pharmaceutical agents on blood flow and tissue vascularity. The studies span a range of clinical areas including research on cancer, cardiovascular disease and musculoskeletal disease.



Ultrastructure Core Facility

Type: Core Laboratory

Summary:

The Ultrastructure Facility is the part of the Electron Microscopy Resource Laboratory that provides conventional transmission electron microscopy (TEM) of cells and tissues services to Penn research groups and external academic research groups in the greater Philadelphia area. The facility houses a JEOL JEM-1010 microscope, sample preparation instruments and all the accessories needed to perform fixing, processing, sectioning, staining, and imaging.



University of Minnesota Nutrition Coordinating Center

Type: Center



University of Pennsylvania

Type: University



University of Pennsylvania Health System

Type: Hospital



University of the Sciences

Type: University



Vector Core (Penn)

Type: Core Laboratory

Summary:

The Penn Vector Core is a full service viral vector core facility located on the University of Pennsylvania campus. With over a decade of experience in the production of viral-based vectors, the Core has become an important technological resource for investigators, both within and external to Penn, interested in the use of viral based vectors for gene transfer. The main objective of the Core is to provide investigators access to state-of-the-art vector technology for preclinical studies and other basic research applications. Such studies, utilizing carefully designed viral vectors, can provide information critical to the understanding of gene function and development of therapeutic vectors.

The Penn Vector Core specializes in the provision of novel AAV serotype vectors and has the greatest experience in producing novel serotype vectors developed at Penn. AAV1, 7, 8, 9 and rh10 were originally isolated at Penn in the laboratory of Dr. James M. Wilson and first made available to investigators through the Penn Vector Core. Due to its close proximity to the Wilson laboratory, the Penn Vector Core is able to rapidly assimilate new vector technologies and make them available to its users. The Core offers a variety of novel serotype AAV vectors and additional vectors currently under development will be distributed through the Penn Vector. All of the vectors generated by the Penn Vector Core are distributed under material transfer agreement (MTA) to academic, government and non-profit institutions. Corporate users may access novel AAV vector technologies through the Penn co-founded company, REGENXBIO Inc.



Virus and Reservoirs Core

Type: Core Laboratory

Summary:

The Virus and Reservoirs Core provides comprehensive Viral and Molecular support to serve the needs of Penn/Wistar/CHOP investigators in the area of basic, translational and clinical HIV research. In addition to an offering of standard services, we are available to develop customized viral and molecular support services as needed in collaboration with CFAR investigators, training for new personnel, and consultation, training, and mentoring as needed.



Voight Laboratory

Type: Laboratory

Summary:

The central aim in my lab is to understand the genetic, biological, and evolutionary basis of metabolic, cardiovascular, and immune-mediated phenotypes in human populations. To build this understanding, the lab constructs computational and statistical tools grounded in principles of population biology and quantitative genetics and apply them to genetic data collected across thousands of entire human genomes.

My research has answered population genetic questions about recent demographic and selective events in human populations, and more recently I have focused on mapping risk alleles for common diseases, particularly type-2 diabetes and heart attack. I have also contributed to novel statistical approaches for population genetic inference and disease mapping studies, as well as leading the development of next generation sequencing and genotypic assay technologies designed to improve characterization of genetic variation in the human genome.

In the coming years, the lab activities will focus on developing informational and statistical tools which interrogate vast quantities of human genetic association data, together with other important information sources -- gene expression, protein-protein networks, Chip-SEQ, text-mining, epidemiology, and multiple phenotypic measurements in humans -- in order to construct credibly actionable information on pathways responsible for disease susceptibility.



Vonderheide Laboratory

Type: Laboratory

Summary:

The Vonderheide laboratory combines efforts in both basic research and clinical investigation to advance the understanding of tumor immunology and to develop novel immunotherapies for cancer. The chief hypothesis is that successful approaches in tumor immunotherapy will need to (a) optimize target antigens with regard to clinical applicability and risk of antigen loss, (b) repair host immuno-incompetence in antigen presentation and T cell function, and (c) circumvent immuno-suppressive factors of the tumor and tumor microenvironment.



Walter Flato Goodman Center for Comparative Medical Genetics

Type: Center

Summary:

Medical genetics is the broad field of science that deals with the role of genes in disease. This involves the identification and characterization of genes that cause disease, as well as the application of genetic knowledge to the diagnosis, treatment, and prevention of genetic diseases. Genetic diseases include disorders in which a single gene mutation is both necessary and sufficient to cause the disease, as well as complex disorders involving the interactions of multiple genes and other factors.

Essentially all of the genetic diseases that occur in humans can be expected to occur in other mammals due to the basic homology between the human genome and the genomes of other mammalian species. However, the recognition of genetic disorders in animals depends upon the degree of medical surveillance utilized and the amount of family information that is available. Domestic animals, particularly the dog and cat, are a rich source of potential models because they are examined by veterinarians for individual diseases at a level that is comparable to human medicine.

The Walter Flato Goodman Center for Comparative Medical Genetics (CCMG) is designed to foster interdisciplinary research and research training in this field through the development of shared resources. The investigators focus their research primarily on naturally-occurring genetic diseases of animals that are true homologs of human genetic diseases.



Wang Laboratory

Type: Laboratory

Summary:

Our lab focuses on Alzheimer’s disease and other neurodegenerative disorders, aging, and psychiatric disorders including autism and bipolar disorder. Ongoing projects in our lab can be divided into the following three main directions:

• Genetics and genomics of Alzheimer’s disease and other neurodegenerative disorders.
• Informatics and algorithm development for genome-scale experiments.
• Biomarker development for aging and neurodegenerative disorders.



Weiss Laboratory

Type: Laboratory

Summary:

My lab studies coronavirus pathogenesis. We use murine coronavirus, mouse hepatitis virus (MHV) infection of mice as a model system for the study of: 1) acute viral encephalitis; 2) chronic demyelinating diseases such as Multiple Sclerosis and 3) virus-induced hepatitis. We have the important tools of a well-developed animal model system and two reverse genetic systems with which to manipulate the viral genome. Human coronaviruses are primarily respiratory viruses, and include the common cold viruses OC43 and 229E as well as the emerging viruses MERS and SARs that cause severe and life threatening diseases. We are beginning to study human coronavirus interactions with respiratory tract cells. Our long-term goal is to elucidate the viral and cellular determinants of coronavirus tropism and pathogenesis in the brain, the liver and the lung. Much of our current work focuses on coronavirus-encoded antagonists of type I interferon, specifically virus-encoded phosphodiesterase that antagonize the OAS-RNase L pathway. Another direction in our lab is the study of the role of inflammasome related cytokines in viral clearance as well as both acute and chronic MHV induced disease.



Weljie Lab

Type: Laboratory

Summary:

The Weljie Lab is located in the Department of Pharmacology at the University of Pennsylvania. Our lab is at the forefront of metabolomics technologies to examine biological problems in a translational medicine context.

Metabolomics is a growing sub-field of systems biology centered on the study of small biological molecules in biological fluids and tissues. Recent research suggests that analysis of metabolite concentrations in living systems is useful in disease diagnosis, prognosis, and predicting drug efficacy in a personalized medicine context.

Our focus is on developing analytical methods to advance research in translational medicine. There is an intrinsic link between metabolism and function of the innate circadian clock system in numerous organisms and disease states, but the exact mechanism by which the clock controls mammalian metabolism is poorly understood. Our work seeks to fill this knowledge gap along with identifying biomarkers of cancer and environmental health.



Wen-Chao Song Laboratory

Type: Laboratory



West Center for Computational Chemistry and Drug Design (USciences)

Type: Center

Summary:

The "West Center" (or WC3D2, for short) is focused on the application of computational methods to chemical and biological problems, as well as on the development of more powerful computational tools to improve the ability of these methods to produce real world answers.



Wherry Laboratory

Type: Laboratory

Summary:

A major goal of the research in Dr. Wherry's laboratory is to understand the mechanisms of T cell exhaustion during chronic infections and cancer. Our work studying CD8 T cell responses during chronic viral infections has demonstrated that virus-specific CD8 T cells often lose effector functions and fail to acquire key memory T cell properties (i.e. become exhausted). Using approaches including high dimensional flow cytometry, transcriptional and epigenetic profiling and in vivo models we are defining cellular pathways involved in T cell exhaustion and normal memory T cell differentiation. Some areas of considerable current interest for the lab include inhibitory receptors (e.g. PD-1, LAG-3), transcription factors and inflammatory pathways. Blockade of inhibitory receptors such as PD-1 (i.e. checkpoint blockade) is now a major therapeutic approach in human cancer. Ongoing studies are examining the mechanisms of these blockades in preclinical models as well as in humans and are investigating the next generation of immune targets to reverse T cell exhaustion. In addition to T cell exhaustion, the laboratory has major interests in the biology of human T follicular helper cells (TFH). Our studies are interrogating the pathways controlling optimal TFH responses following human vaccination. Finally, additional interests in the lab include intestinal novovirus infection, respiratory infections and co-infections.



Wolfe Laboratory

Type: Laboratory



Wu Laboratory

Type: Laboratory

Summary:

The research programs in the Wu laboratory focus on the mutualistic interactions between the gut microbiota and the host with a particular focus on metabolism. Growing evidence suggests that diet impacts upon both the structure and function of the gut microbiota that, in turn, influences the host in fundamental ways. Current areas of investigation include the effect of diet on the composition of the gut microbiota and its subsequence effect on host metabolism related to nitrogen balance as well as its impact on metabolic pathways in the intestinal epithelium, principally fatty acid oxidation. Through a UH3 roadmap initiate grant, he is helping to direct a project investigating the impact of diet on the composition of the gut microbiome and its relationship to therapeutic responses associated with the treatment of patients with Crohn’s disease using an elemental diet. Finally, Dr. Wu is leading a multidisciplinary group of investigators using phosphorescent nanoprobe technology to examine the dynamic oxygen equilibrium between the host and the gut microbiota at the intestinal mucosal interface.



Youhai H. Chen Lab

Type: Laboratory



cGMP Lenti Vector Core (Penn)

Type: Core Laboratory

Summary:

The CAROT Lenti Vector Core is a state-of-the-art production facility, with a Class 7 clean room suite. The production and QA/QC procedures meet the current GMP regulations as enforced by the FDA. Mr. William Chung is the director of the Lenti Vector Core GMP operations. The core group also provides CMC support for regulatory submissions with the assistance of Dr. Ilan McNamara.



Found 468   resource providers .

This institution proudly participates in the eagle-i Network. Use the search bar above to search more than 90,000 biomedical research resources currently listed in eagle-i from more than 28 institutions. Not sure what you're looking for? Choose "Browse" at the top of the page to see organisms, instruments, reagents, services and more.

To learn more about the eagle-i Network, resources and institutions, please visit www.eagle-i.net.
Copyright © 2016 by the President and Fellows of Harvard College
The eagle-i Consortium is supported by NIH Grant #5U24RR029825-02 / Copyright 2016