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Research Cores

Within the School of Medicine, there are a number of services that make available research resources for internal investigators. Many of these resources are available to external investigators on a core by core basis. Below we have listed these services.

Microscopy and Imaging Cores

CCMI Confocal Microscopy

Technology: Multiple confocal microscopy systems

Operational Model: Training and for user access to seven confocal systems including Airyscan, STED, Swept Field, Light Sheet and Super Resolution Microscopes. Software programs from multiple vendors are available for post-acquisition analysis including fluorescence deconvolution, 3D rendering, measurements of time lapse data and fluorescence co-localization.

More information about CCMI Confocal Microscopy
Contact: Al Mennone
(203) 785-3793

CCMI Bio-Electron Microscopy (EM)

Technology:

  • Cell and tissue sample processing, embedding in resin for TEM
  • Ultramicrotomy of plastic sections · Cryo-sectioning and immuno-gold labeling (Tokuyasu method)
  • Immuno-electron microscopy · Transmission electron microscopy and digital imaging
  • Scanning electron microscopy · Electron tomography for resin embedded samples (single/dual tilt series)
  • Focused ion beam SEM sample preparation and 3D data collection (FIB-SEM)
  • Training on operating various electron microscopes and sample prep instrument
  • Consultation and assistance in experimental design, grant application and publication

Operational Model: staff-provided sample preparation and imaging, or training for independent imaging

More information about CCMI Bio-Electron Microscopy
Contact: Xinran Liu, PhD
(203) 785-4050

CINEMA

Services: Microscope imaging center: Imaging technologies (microscopes)-TIRF, Spinning Disk, STED & SIM

More information about CINEMA

Positron Emission Tomography (PET) Center

Services: PET scans and related services (radiosynthesis, metabolite analysis; ligand development, PK studies).

More information about PET Center

Yale MR Image Res Center (MRRC)

Services: All of the resources necessary for integrated studies of human brain function including research magnets and personnel for electrophysiological (1 dedicated EEG room) and psychological testing (3 behavioral testing rooms), computing, and image and data analysis. Dedicated to research activity.

YSCC/ HESC / IPSC Core Facility

Provides essential services for research on human embryonic stem cells (hESCs) and human induced pluripotent stem cells (iPSCs)

More information about YSCC/ HESC / IPSC Core Facility

Microscopy Core

Services: Cryo Microscopy & Imaging Core includes a cryomicrotome, and ultramicrotome, a Zeiss electron microscope, a Zeiss Axiophot epifluorescent photomicroscope and a Zeiss laser scanning confocal microscope. Technical staff provide support for users of this facility. Cryo Microscopy - Freeze a tissue sample, slice, mount, stain and return to customer. Usage of cryostat, cut cryostat sections, slided that are used for the cryostat

More information about Microscopy Core

Flow Cytometry and CyTOF

Yale Flow Cytometry Facility
Technology: Flow cytometry analyzers and fluorescence activated cell sorting, and Amnis Imagestream Imaging Flow Cytometer, Luminex, FlowJo Site License access

Operational Model: Provides training and access for Flow Cytometry Analyzers and staff-assisted Cell Sorting; PBMC isolation and cryopreservation; Plasma or serum purification; Luminex assays, data acquisition & analysis (with user provided kits); Immunofluorescence surface or intracellular cell staining, analytic data acquisition and analysis.


Contact: Ann Haberman, ann.haberman@yale.edu

(203) 785-7349
CyTOF
Technology: Analysis of cells with a stable heavy metal isotope using time-of-flight atomic mass cytometry and imaging mass cytometry (IMC). Core maintains a repository of well-characterized metal conjugated antibodies, metal labeling reagents, metal-conjugated anti-fluorochrome antibodies (e.g. anti-FITC).

Operational Model: Staff assisted access


Contact: Ruth Montgomery, PhD Ruth.Montgomery@yale.edu

(203) 785-7039

Genomics and Proteomics Cores

Yale Center for Genome Analysis

Technologies: Next-Gen Sequencing with multiple platforms (Illumina, Pacific Biosciences, 10X Genomics), Bioinformatics and microarrays for expression analysis, genotyping, miRNA and methylation analysis

Operational Model: Staff-provided services for Next-Generation Sequencing, Bioinformatics and Microarrays

More information about Yale Center for Genome Analysis
Contact: ycga@yale.edu
(203) 737-3031

Mass Spectrometry and Proteomics

Technology:

  • Basic Protein ID from gel bands
  • Protein ID from complex solution
  • Protein Posttranslational Modification (PTM) identification
  • Protein profiling and quantitation (Labeled Free Quantitation, iTRAQ, TMT, & SILAC)
  • Intact Protein Determination
  • High Resolution (HR) MS for small molecule
  • Targeted Proteomics (PRM)
  • Metabolomics Biomarker Assay (utilizing Biocrates p180)

Operational Model: Staff-provided and Open Access

More information about Mass Spectrometry and Proteomics
Contact: TuKiet Lam
(203) 785-5086

DNA Sequencing

Technology: Sanger sequencing services including individual samples, plated samples, PCR purification, fragment analysis, RT-PCR, and DNA and RNA QC Analysis

Operational Model: Staff-provided service

More information about DNA Sequencing
Contact: Amy Blanchard
dnasequencing@yale.edu
(203) 737-2566

Oligo Synthesis Resource

Technology: Oligos including modified oligo and plate-based formats, custom cloning, RNA and methylated RNA, mixed bases, and purification

Operational Model: Staff-provided custom synthesis of oligonucleotides

More information about Oligo Synthesis Resource
Contact: Joe DeLuca
oligos@yale.edu
(203) 737-2541

Functional Genomics Core

Services: ShRNA and CRISPR/Cas9 screens in human and mouse cells. Resources include pooled libraries for screening, consultation and guidance in performing screens, and bioinformatics support for analysis of screening data. The core houses genome-wide collections of shRNA constructs and full length human ORF cDNAs that are available as individual constructs.

More information about Functional Genomics Core

YSCC Genomics Core Service

The YSCC Genomics Core Service provides DNA sequencing services, Transcriptome analysis (RNA-Seq), Small RNA discovery (smRNA-Seq), Gene regulation & epigenetic analysis (ChIP-Seq), Customized sequencing per user design and single cell genomics with Fluidigm C1 IFCs

More information about YSCC Genomics Core Service

Structural Biology and Biophysics

Keck Biophysical Resource

Technology: Resources to study oligomeric state of biomolecular assemblies, as well as thermodynamics and kinetics of macromolecular interactions using:

  • light scattering
  • dynamic light scattering detector (DLS)
  • isothermal microcalorimetry (ITC)
  • surface plasmon resonance - BiaCore biosensor (SPR)
  • stopped-flow spectrofluorometer
  • Spectrofluorometer: PTI-QuantaMaster
  • Asymmetric flow Field-Flow Fractionation
  • Fluorescence plate reader
  • CD - spectrophotometer

Operational Model: Training and instrument access

More information about Keck Biophysical Resource
Contact: Ewa Folta-Stogniew
(203) 737-4387

Macromolecular X-ray Crystallography

Technologies: Protein characterization (MALS detector, Nano isothermal titration calorimeter), robotic crystallization preparation, crystallization imaging and growth monitoring, X-ray diffraction data collection, data processing and structure determination software.

Operational Model: Training and instrument access and staff-provided service

More information about Macromolecular X-ray Crystallography
Contact: Jim Murphy
(203) 906-5759

Animal Research Cores

Yale Genome Editing Center

Technologies: YGEC creates genetically engineered mice via CRISPR/Cas genome editing, gene targeting via homologous recombination in ES cells, and traditional transgenic mouse technology. YGEC also cryopreserves sperm or embryos of inherently valuable genetically altered mouse strains. Assisted reproduction technologies include strain reanimation or rescue via in vitro fertilization and/or embryo transfer.

Operational Model: Staff-provided services

More information about Yale Genome Editing Center

Contact:

  • Tim Nottoli (203) 737-4325 to discuss constructs for creating transgenic mice, gene targeting and genotyping
  • Xiaojun Xing (203) 785-6923 to discuss microinjection, zygote electroporation, IVF, cryopreservation and rederivation.
Zebrafish Phenotyping Core for Precision Medicine

Technology: Expert resources to create transgenic zebrafish and provide assistance in phenotyping them.

Operational Model: Staff-provided service

More information about Zebrafish Phenotyping Core for Precision Medicine

Contact: Andrew Prendergast
(203) 843-0870

Yale Animal Resources Center

Animal housing husbandry complete veterinary services on the care and use of animals.

More information about Yale Animal Resources Center

Center for Precision Cancer Modeling

In vivo pharmacological evaluation of anti-cancer therapeutics. Services include efficacy, toxicology, pharmacokinetics, pharmacodynamics and imaging studies

More information about Center for Precision Cancer Modeling

In Vivo Imaging Facility (IVI)

Resources including staff support for a two-photon laser scanning microscope and surgical preparation area to perform time-resolved intravital imaging of rodents.

Yale Translational Research Imaging Center (Y-TRIC)

Small and large animal CT, SPECT-CT and ultrasound. Small animal laser Dopler flow. Large animal fluoroscopy. Pre- and post-operative animal care assistance associated with animal surgery.

More information about Yale Translational Research Imaging Center

O'Brien Kidney Center-Renal Physiology Core

Provides a variety of services that phenotype kidney function including assessing renal function in small animals at the level of single tubules in vitro and in vivo, the whole kidney, perfusion fixation for histology studies, and the intact organism.

More information about O'Brien Kidney Center-Renal Physiology Core

Center for IOMIC Flux

The Islet, Oxygen consumption, Mass Isotopomer flux core (IOMIC) measures islet function, oxygen consumption, and cellular metabolic flux

More information about Center for IOMIC Flux

Automated Complete Blood Counts (Hemavet)

The Core uses a Hemavet veterinary hematology analyzer that provides accurate CBC counts from whole blood of mice, rats, dogs, and humans (research use only).

More information about Automated Complete Blood Counts

Cesium irradiator and x-ray irradiators

Enables irradiations of molecular compounds, cell culture, animal and human tumor cells, and whole animal experiments.

More information about Cesium irradiator and x-ray irradiators

Comparative Pathology Research Core

Pathology support for animal-based studies to better understand disease processes and their treatment including comparative pathology, histology, necropsy and virology.

More information about Comparative Pathology Research Core

Molecular and Serological Diagnostics

Testing of tissues, cells, feces and environmental samples for veterinary viruses, bacteria, parasites and fungi by PCR and RT-PCR. Biological contaminant testing of samples to be inoculated into rodents is required by IACUC and is free of charge to Yale principal investigators. Testing of mouse and rat sera for rodent viruses and Mycoplasma pulmonis.

More information about Molecular and Serological Diagnostics

Yale Orthopedics Biomechanics Lab

This lab assesses the biomechanical properties of musculoskeletal tissues, providing services and technical assistance.

More information about Yale Orthopedics Biomechanics Lab

Diagnostics Cores

Genetics Cytogenetics Research

Services include chromosome karyotyping, cell and tissue culture (most organs, both human and non-human sources), fluorescence in situ hybridization, banding techniques (HRB, CBG, GTW, replication, SCE, and others), and advanced array comparative genomic hybridization (aCGH) diagnostics. Types of specimens processed include blood, amniotic fluid, chorionic villus, products of conception, bone marrow, skin and solid tumor samples from clinicians as well as various cell lines and tissues from researchers.

More information about Genetics Cytogenetics Research

DNA Diagnostics Lab

College of American Pathologists and CLIA certified laboratory with decades of experience in the molecular diagnosis of genetic disease. We provide testing for cancer predisposition, metabolic and developmental disorders. Provide GeneTests and custom re-sequencing assays.

More information about DNA Diagnostics Lab

Mol Diagnostics

Molecular Diagnostics by PCR and FISH tests including tests for clonal rearrangement, microsatellite instability, chromosomal segment deletion or translocation

More information about Mol Diagnostics

Tumor Imaging Metrics Core (TIMC) and Imaging Support Services
The mission of TIMC is to provide standardized, longitudinal radiological measurements to evaluate therapeutic responses for clinical trials. TIMC tracks changes in tumor measurements per study protocol, which is essential for clinical trials that use radiological measurements as surrogate endpoints. The system manages these images and takes measurements in a routine and centralized method.

Imaging Support Services, ISS, manages the imaging components of the Yale Cancer Center’s clinical trials from budget and feasibility through close out. Staff reviews sponsor and cooperative group protocols, imaging acquisition guidelines, and imaging manuals to identify standard and non-standard imaging to ensure feasibility. This includes determining the appropriate fees and imaging resources for project completion, completing the image transfer out of PACs to the sponsors for all disease teams, and serving as the primary contact for sponsors and central vendors. ISS also manages the clinical research radiology approvals for non-standard imaging/pricing.

Operational Model: Staff-provided service with MD oversight


Contact: MD Director – Michael Spektor, Staff Manager – Eliot Funai, Support Email – ydrcto@yale.edu

Pathology and Histology Cores

Dermpath Research Histology

Process and Embed Tissue; Cut and Stain, 1st H&E Slide; Additional Cut Unstained Slide; Additional Cut and Stained H&E Slide; Special Stain; Immunohistochemistry; Immunofluorescence; 20X Slide Scan (Delivered on flash drive); 40X Slide Scan (Delivered on flash drive); 20X Slide Scan (PathPresenter-3mo. Max); 40X Slide Scan (PathPresenter-3mo. Max); In-Situ Hybridization (HPV High + Low); Frozen tissue mounting, cutting and staining

Operational Model: Staff-provided service

Contact: Dilgash Mekael, office #: 203-737-4363

Yale Pathology Tissue Services

Embedding/Sectioning of Tissue, Stain. Tissue Microarray: Construction of Core Master Block, Slides from Tissue Microarray master blocks, Test Array. Antibody Validation, Antibody Titration, Quantification of Protein Expression in Tissue, In Situ Quantification of m-RNA Levels, Index Array Development

More information about Yale Pathology Tissue Services

Orthopædic Histology and Histomorphometry Laboratory

The primary service provided is specialized processing, plastic embedding and cutting required for undecalcified tissues and biomaterial implants. Other services provided by this lab include routine paraffin embedding and sectioning, frozen sectioning, routine and special stains and immunohistochemical as well as enzyme histochemical stains. Also, histomorphometrical analyses of bone and other tissues are performed by this lab.

More information about Orthopædic Histology and Histomorphometry Laboratory

Drug Discovery

Yale Center for Molecular Discovery

Technology: Resources for assay development and high throughput screening with small molecules in biochemical, cell-based and image-based assays (primarily 384-well format). Human CRISPR whole genome library available. Reformatting of samples in 96-, 384- and 1536-well plates. Platereading with a variety of modalities including FLIPR. High throughput image analysis.

Operational Model: Staff-provided service and Self Service Laboratory (subset of instruments)

More information about Yale Center for Molecular Discovery
Contact: Yulia Surovtseva
(203) 737-3271

Clinical Trial Related Cores

Yale Center for Clinical Investigation

YCCI provides "one-stop shopping" designed to make conducting clinical research as easy and efficient as possible. Resources and expertise are available throughout every step of the research process, from getting studies off the ground to analyzing data.

More information about YCCI

Yale Center for Analytical Sciences (YCAS)

Services: Statistical Modeling, Statistical Consultation, Clinical Trial Design, Epidemiological Studies, Ecological Studies, GIS analysis, Spatial Analysis, Statistical Genetics, Bayesian Statistical Analysis, Survey Sampling, Exploratory Data Analysis, Big Data, Study Design, Research Methodology and Biostatistics Teaching

More information about Yale Center for Analytical Sciences

Rapid Case Ascertainment (RCA)

Services for cancer researchers for clinical trials related to protocols, consent, case identification, data collection at CT hospitals, pathology specimen collection, Medical Record Abstraction, Physician and Patient consent and more.

More information about Rapid Case Ascertainment

Human Sample Processing

For the Yale SPORE in lung cancer, the tissue Bank processes human samples for research use including consent and sample collection (bone marrow, blood, buccal swabs, skin biopsies). We maintain the HIC Protocol, assure compliance with human subject research regulations.

More information about Human Sample Processing

Clinical Research Support Lab

This is the primary non-CLIA certified laboratory responsible for collecting, processing, stabilizing, documenting, shipping and tracking all research biospecimens from patients participating in therapeutic clinical trials supported by the Yale Cancer Center Clinical Trials Office.

Watch a brief video about Clinical Research Support Lab

Tumor Imaging Metrics Core

The mission of TIMC is to provide standardized, longitudinal radiological measurements to evaluate therapeutic responses for clinical trials.

More information about Tumor Imaging Metrics Core

Machine Shop

Machine Shop

Technology: Expert, custom services for custom design and fabrication, and repair, as well as tools for loan.

Operational Model: Staff-provided service including on-site and emergency service

More information about the Machine Shop
Contact: Tony DeSimone
(203) 785-4677

Resource Cores

YSCC/ HESC / IPSC Core Facility

Provides essential services for research on human embryonic stem cells (hESCs) and human induced pluripotent stem cells (iPSCs)

More information about YSCC/ HESC / IPSC Core Facility

CD34 Cells, Selected PBSC

CD34+ Cells from healthy human donors for use in research

More information about CD34 Cells, Selected PBSC

Tissue Culture Vascular Biology and Therapeutics

Provide well characterized cultures of HUVEC, HECFC Cells, Media, placenta or cord blood, and media component for culturing endothelial cells.

More information about Tissue Culture Vascular Biology and Therapeutics

Yale University Reproductive Sciences Biobank

Provide the ethical collection, storage, annotation, and distribution of tissue and bodily fluids to support translational research for the field of Obstetrical and Gynecologic pathology.

More information about Yale University Reproductive Sciences Biobank