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Core Laboratories at University of Pennsylvania

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

Acute Care Biobanking Core (Penn/CHOP)

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)

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)

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)

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.



Alzheimer's Disease Core Center (Penn)

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.



Analytical Neurochemistry Core

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)

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)

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

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.



Behavioral and Physiological Phenotyping Core (Monell)

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.



Biacore Facility Core

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.



Bioanalytical Core laboratory (CHOP)

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)

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)

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)

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

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)

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 Research Core Facilities

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)

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)

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 Unit

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

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

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)

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

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



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

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)

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)

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)

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)

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)

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)

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)

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)

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)

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)

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

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)

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)

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)

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

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.



Cartographic Modeling Lab (Penn)

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)

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)

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

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)

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)

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)

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 Applied Genomics (CHOP)

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 Injury Research & Prevention Core (CHOP)

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.



Chemosensory Receptor Signaling Core (Monell)

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.



Clinical Cell and Vaccine Production Facility (Penn)

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

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)

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

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)

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

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)

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/Cancer Imaging Core (Penn)

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)

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)

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

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.



Cyclotron Facility (Penn)

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.



Development Core

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.



Electron Microscopy Resource Laboratory (Penn)

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.



Exposure Biology Informatics Core



Extracellular Vesicle Core

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.



Flow Cytometry Core Laboratory (CHOP)

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)

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)

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.



Functional Genomics Core (PSOM)

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 Diagnostic Laboratory (Penn)

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.



Genomic Analysis Core

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)

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."



Healthcare Analytics Unit Core (CHOP)

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)

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)

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

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)

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

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)

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.



Host-Microbial Analytic and Repository Core

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)

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)

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

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.



ITMAT Bioinformatics Facility (Penn)

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

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)

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

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

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)

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.



Integrative Health Sciences Facility Core

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.



International Core

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.



Interventional Radiology Animal Catheter Lab (Penn)

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)

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

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.



Live Cell Imaging Core

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)



Mass Spectrometry Facility (Penn)

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)

Summary:

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



Metabolic Tracer Resource (Penn)

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)

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)

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

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

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)

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)

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)



Mixed Methods Research Lab (Penn)

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 Pathology & Imaging Core

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)

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)

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)

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.



Mouse Cardiovascular Phenotyping Core (Penn)

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)

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.



Nanoscale Characterization

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.



Neurobehavior Testing Core (Penn)

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

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

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)

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



Next-Generation Sequencing Core (Penn)

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

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

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)

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)

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.



Outcomes Measurement Methods Core (Penn)

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).



Pancreatic Islet Cell Biology Core (Penn)

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.



Pathology Clinical Service Center (Penn)

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)

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

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.



Penn Chemistry NMR Facility (Penn)

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 Genomics Analysis Core

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)

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 Medicine Academic Computing Services (Penn)

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 Vector Core- Gene Therapy Program

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

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.



Positron Emission Tomography Center (Penn)

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

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

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.



Prevention Science and Community Engagement Core

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

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)

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)

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.



Quantitative Proteomics Resource Core (Penn/CHOP)

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

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)

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.



Radioimmunoassay and Biomarkers Core (Penn)

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.



Recruitment, Outcomes, and Assessment Resource (Penn)

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)

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)

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)

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)

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)

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.



Singh Center for Nanotechnology (Penn)

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)

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)

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)

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)

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)

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)

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.



Stem Cell & Xenograft Core (Penn)

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.



The Genotyping and DNA/RNA Analysis Core (Monell)

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.



Tissue Processing 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)

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)

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)

Summary:

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



Translational Core Laboratories (CHOP)

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.



Transmission Electron Microscope

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.



Ultrasound Research Laboratory (Penn)

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

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.



Vector Core (Penn)

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

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.



cGMP Lenti Vector Core (Penn)

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.



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