# VISION: ValIdated Systematic IntegratiON of epigenomic data

> **NIH NIH R24** · PENNSYLVANIA STATE UNIVERSITY, THE · 2020 · $1,183,458

## Abstract

Project Summary VISION: ValIdated Systematic IntegratiON of hematopoietic epigenomes
Technological advances enabling the production of large numbers of rich, genome-wide, sequence-based
datasets have transformed biology. However, the volume of data is overwhelming for most investigators. Also,
we do not know the mechanisms by which the vast majority of epigenetic features regulate normal
differentiation or lead to aberrant function in disease. We have formed an interdisciplinary, collaborative team
of investigators to address the problem of how to effectively utilize the enormous amount of epigenetic data
both for basic research and precision medicine. At this point, acquisition of data is no longer the major barrier
to understanding mechanisms of gene regulation during normal and pathological tissue development. The
chief challenges are how to: (i) integrate epigenetic data in terms that are accessible and understandable to a
broad community of researchers, (ii) build validated quantitative models explaining how the dynamics of gene
expression relates to epigenetic features, and (iii) translate information effectively from mouse models to
potential applications in human health. These needs are addressed by the proposed ValIdated Systematic
IntegratiON (VISION) of epigenetic data to analyze mouse and human hematopoiesis, a tractable system with
clear clinical significance and importance to NIDDK. By pursuing the following Specific Aims, the
interdisciplinary collaboration will deliver comprehensive catalogs of cis regulatory modules (CRMs), extensive
chromatin interaction maps and deduced regulatory domains, validated quantitative models for gene regulation,
and a guide for investigators to translate insights from mouse models to human clinical studies. These
deliverables will be provided to the community in readily accessible, web-based platforms including customized
genome browsers, databases with facile query interfaces, and data-driven on-line tools. Specifically, the
proposed work in Aim 1 will build comprehensive, integrative catalogs of hematopoietic CRMs and
transcriptomes by compiling and determining informative epigenetic features and transcript levels in
hematopoietic stem and progenitor cells and in mature cells. CRMs will be predicted using the novel IDEAS
(Integrative and Discriminative Epigenome Annotation System) method. Work proposed in Aim 2 will build and
validate quantitative models for gene regulation informed by chromatin interaction maps and epigenetic data.
Compiling and determining chromosome interaction frequencies will predict likely target genes for CRMs. Gene
regulatory models will be built that predict the contributions of CRMs and specific proteins to regulated
expression; these models will be validated by extensive testing using genome-editing in ten reference loci.
Finally, work in Aim 3 will produce a guide for investigators to translate insights from mouse models to human
clinical studies. This effort will inclu...

## Key facts

- **NIH application ID:** 9976999
- **Project number:** 5R24DK106766-05
- **Recipient organization:** PENNSYLVANIA STATE UNIVERSITY, THE
- **Principal Investigator:** DAVID M. BODINE
- **Activity code:** R24 (R01, R21, SBIR, etc.)
- **Funding institute:** NIH
- **Fiscal year:** 2020
- **Award amount:** $1,183,458
- **Award type:** 5
- **Project period:** 2016-07-18 → 2022-05-31

## Primary source

NIH RePORTER: https://reporter.nih.gov/project-details/9976999

## Citation

> US National Institutes of Health, RePORTER application 9976999, VISION: ValIdated Systematic IntegratiON of epigenomic data (5R24DK106766-05). Retrieved via AI Analytics 2026-05-25 from https://api.ai-analytics.org/grant/nih/9976999. Licensed CC0.

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