# Allele-specific analysis of human epigenome, transcriptome and high-resolution chromatin organization

> **NIH NIH R03** · UNIVERSITY OF MICHIGAN AT ANN ARBOR · 2022 · $279,992

## Abstract

Abstract
The human genome has two alleles at each genetic locus, with one allele inherited from each parent. Allele-
specificity has been widely observed and investigated across human transcriptome, epigenome and 3D chromatin
organization respectively, as evidenced by the data collected from the GTEx project, the ENCODE project, and the
4DN project. However, the allele-level interplay among transcriptome, epigenome and 3D chromatin organization
has not been systematically explored. In the proposal, we aim to leverage shared donors between these
consortia and systematically investigate these connections at allele-level in many human tissue types. With
the single cell datasets available from these donors, we will narrow down from tissue level to cell type level,
and further interrogate these allele-specific cross-modality connections. In essential, our analysis seamlessly
integrates two NIH Common Fund datasets, namely 4DN and GTEx datasets, and ENCODE datasets. With this
integrated data source, biomedical researchers can easily navigate, browse, compare and investigate the high
quality, high resolution, and comprehensive datasets regarding chromatin organization, regulatory elements,
epigenomic status and transcriptional activity with allele-specificity and cell-type-specificity. Not only would this
accomplishment have an enormous positive impact on the utility and usage of the Common Fund datasets, it
would also help to promote open science and reproducible research in the areas of computational genomics and
data science.

## Key facts

- **NIH application ID:** 10576452
- **Project number:** 1R03OD034500-01
- **Recipient organization:** UNIVERSITY OF MICHIGAN AT ANN ARBOR
- **Principal Investigator:** Jie Liu
- **Activity code:** R03 (R01, R21, SBIR, etc.)
- **Funding institute:** NIH
- **Fiscal year:** 2022
- **Award amount:** $279,992
- **Award type:** 1
- **Project period:** 2022-09-20 → 2024-05-19

## Primary source

NIH RePORTER: https://reporter.nih.gov/project-details/10576452

## Citation

> US National Institutes of Health, RePORTER application 10576452, Allele-specific analysis of human epigenome, transcriptome and high-resolution chromatin organization (1R03OD034500-01). Retrieved via AI Analytics 2026-05-26 from https://api.ai-analytics.org/grant/nih/10576452. Licensed CC0.

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