Learn About Einstein’s Genomics Shared Resource
On Thursday, January 30, 2020, at noon, during the Pathways to Success at the Einstein Cores bimonthly seminar series, held in the Forchheimer third-floor lecture hall, learn how resources within Einstein’s Genomics Shared Resource can aid your research. Bernice Morrow, Ph.D., and David Reynolds–scientific and operations directors, respectively–will offer an overview of the core’s services and the capabilities of its facilities. Then hear how Leonard Augenlicht, Ph.D., and Cristina Montagna, Ph.D., are already putting these services to good use, working with the facility’s team.
About the Genomics Shared Resource
The Genomics Core serves the Einstein scientific community by providing a broad range of services, utilizing current and emerging nucleic acid technologies. Single-cell assays, MPS, microarrays, real-time PCR, Sanger sequencing and assay automation are available. The core provides a number of technologies for genotyping DNA from humans or model organisms, varying from SNP (single nucleotide polymorphism) typing to targeted sequencing for variant discovery.
- Single-Cell Analysis
- Single-Cell (sc) Genomic Assays: RNA-seq, DNA Copy Number
- Single-Cell Western analysis
- Targeted Single-Cell DNA-Seq
- MPS (Next Gen Sequencing) – with the Epigenomics Shared Facility
- Gene Expression Microarrays – Fast turnaround and free data analysis software
- Genotyping and Copy Number Variation (CNV) Microarrays
- Single Nucleotide Polymorphism (SNP) and Mutation Analysis
- Sanger Sequencing – fast service and one on one troubleshooting
- Cell Line Authentication (CLA) – ensure your cell lines meet current guidelines
- Microsatellite Instability Analysis (MSI)
- RNA/DNA Quality Analysis – Agilent Bioanalyzer
- qPCR – 384-well, 96-well and array card formats
- Liquid Handling Automation – high throughput PCR, plate replication, dilutions
- Custom assay design
It’s Been Said
“Our core offers both standard genomic assays such as traditional Sanger sequencing, as well as the latest single cell RNA-sequencing. We work closely with the Epigenomics Core as well as the Molecular Cytogenetic Core to provide full service genomic assays for our users. We even provide custom assays for researchers that do not have access to a laboratory.”
Bernice Morrow, Ph.D.
“Generation of high-quality, single-cell sequencing libraries by the Einstein Genomics Shared Resource, supervised by Dave Reynolds, has had a major impact on our research into mechanisms of intestinal homeostasis and the perturbations that lead to tumors. The data from single-cell RNA sequencing clarify the complexity of these processes in establishing relative representation of multiple, varied functional cell types and sub-types in the intestinal mucosa under different environmental conditions, and the extensive reprogramming of gene expression in individual cells and cell subtypes. This has generated new hypotheses regarding underlying mechanisms and physiological consequences of alterations induced by environmental and/or genetic factors. The data also challenge the idea that there is a single ideal tissue homeostatic state, instead suggesting there may be continuous remodeling in adapting to environmental and physiological signals.”
Leonard Augenlicht, Ph.D.
Professor of Medicine; of Cell Biology
“We study Whole Chromosome Instability (W-CIN), a type of genomic instability associated with increased frequency of aneuploidy, and its contribution to aging and disease. Our trusty approach to quantify chromosome gains and losses is by Fluorescence in situ Hybridization (FISH) using custom chromosome enumeration probes that enable the sensitive quantification of W-CIN at the single-cell resolution in large number of cells. While powerful, this approach limits the number of chromosomes that we can simultaneously analyze in a single cell to two or four, because of the fluorophores available for chromosome labeling. The expertise of the Genomics Core has been crucial to establish a single-cell, whole genome sequencing assay that enables us to study all chromosome complements in the same single cell to begin investigating potential patterns of chromosome gain and losses in different experimental conditions. Under the expert guidance of Dr. David Reynolds, we have now performed whole chromosome analyses in approximately 2,000 single cells and have begun generating meaningful data about recurrent chromosome copy number changes in our in culture models.”
Cristina Montagna, Ph.D.
Associate Professor of Genetics; of Pathology
Molecular Cytogenetic Core Director
Posted on: Tuesday, January 28, 2020