# Chromatin and Gene Analysis Core

> **NIH NIH P50** · ICAHN SCHOOL OF MEDICINE AT MOUNT SINAI · 2020 · $418,263

## Abstract

PROJECT SUMMARY – CHROMATIN AND GENE ANALYSIS CORE
The Chromatin and Gene Analysis Core provides the technical and bioinformatics infrastructure to optimally
mine the large amount of genome-wide gene expression and chromatin data that are generated from the
Center's work. Center investigators lead the field in several aspects of genome-wide chromatin analyses,
including pioneering these approaches in brain, which offers several technical challenges. We have optimized
methods for several next generation sequencing approaches, including RNA-seq, ChIP-seq, ATAC-seq, in situ
HiC, and whole genome bisulfite sequencing, among others, for mouse and human brain, the latter offering an
additional set of unique technical challenges. These approaches are being used increasingly to study individual
cell types within a given limbic brain region, in both mouse and human. The Core has established expertise in
analyzing the highly complex datasets obtained, and will continue work on further improving the tools available.
All of the genome-wide data generated by our Center are analyzed by this Core. In parallel, the Core runs
routine genome-wide assays on defined animal models, with the Animal Models Core, and thereby provides a
foundation for the more specific and sophisticated measures in the individual Projects. Indeed, each Project
focuses on genes that are among the most robustly regulated across mouse depression models and human
depression. As well, the Core pilots novel experimental technologies; an example is our ability to target single
chromatin modifications to a single gene within a single brain region and cell type in vivo, thus providing an
unparalleled level of proof to establish epigenetic mechanisms of depression. By consolidating the analytical
work and routine genome-wide analyses within a centralized Core, we ensure rigorous control over the data
and facilitate comparisons of experimental findings across the four individual Projects. This consolidation also
makes financial sense, since we concentrate and maximize efficient use of our expertise. Finally, the Core is
responsible, with the Administrative Core, in maintaining a platform for sharing our genome-wide datasets and
analytical tools across the Center's laboratories as well as with the scientific community and lay public at large.

## Key facts

- **NIH application ID:** 9878926
- **Project number:** 5P50MH096890-09
- **Recipient organization:** ICAHN SCHOOL OF MEDICINE AT MOUNT SINAI
- **Principal Investigator:** Li Shen
- **Activity code:** P50 (R01, R21, SBIR, etc.)
- **Funding institute:** NIH
- **Fiscal year:** 2020
- **Award amount:** $418,263
- **Award type:** 5
- **Project period:** — → —

## Primary source

NIH RePORTER: https://reporter.nih.gov/project-details/9878926

## Citation

> US National Institutes of Health, RePORTER application 9878926, Chromatin and Gene Analysis Core (5P50MH096890-09). Retrieved via AI Analytics 2026-05-26 from https://api.ai-analytics.org/grant/nih/9878926. Licensed CC0.

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