# Single-cell Mapping Center for Human Regulatory Elements and Gene Activity

> **NIH NIH UM1** · STANFORD UNIVERSITY · 2023 · $2,567,084

## Abstract

PROJECT SUMMARY/ABSTRACT
A comprehensive genome-wide map of DNA regulatory elements and gene expression in human cells is of
critical importance for understanding how genomic variation impacts human health and disease. Since regulatory
DNA elements are exceptionally cell type-, tissue-, and disease state-specific, a comprehensive catalog of these
elements has been difficult to achieve. The overall mission of this IGVF Mapping Center is to create a high-
quality, open-access, and single cell-resolution reference map of human regulatory elements and gene
expression in immune cells during human development, across organ systems in healthy adults, and in tissues
from diverse immune-related diseases. Our Mapping Center will leverage: (i) our recent advances in developing
scalable and cost-efficient single-cell epigenome and multi-omic technologies to simultaneously map open
chromatin sites, gene expression, intracellular and cell surface proteins, and clonal lineage tracing in each tissue
sample, (ii) our prior technical improvements and application of these methods to primary tissues from humans,
and (iii) our pre-existing human tissue biobank consisting of samples from more than 500 human individuals, 20
organ systems, and 15 disease conditions, consented for unrestricted access, genomic sequencing, and data
sharing. In Specific Aim 1, we will work closely with the IGVF Consortium to establish cross-center plans for data
generation, analyses, and effective coordination of sample access and sharing. In Specific Aim 2, we will
generate a single-cell multi-omic atlas of immune cell types (and non-immune cells types, as determined with
the IGVF) during development in early life, healthy aging, and across human organ systems. In Specific Aim 3,
we will generate a single-cell multi-omic atlas in immune cell types from primary tissues in patients with
autoimmunity, cancer, neurodegenerative disease, and infection. In Specific Aim 4, we will analyze regulatory
sites and gene expression in the context of clonal differentiation trajectories inferred from mitochondrial lineage
tracing and develop and maintain an integrated reference map of each datatype and tissue sample for the
research community. Our Mapping Center, composed of 7 new investigators with extensive experience in single-
cell genomic technologies and human disease analysis, will work closely with the IGVF to share technologies,
resources, data, and tissue samples towards the shared goal of developing a comprehensive single-cell atlas of
cell types, functional regulatory elements, and gene expression in humans.

## Key facts

- **NIH application ID:** 10691521
- **Project number:** 5UM1HG012076-03
- **Recipient organization:** STANFORD UNIVERSITY
- **Principal Investigator:** Michael Ryan Corces
- **Activity code:** UM1 (R01, R21, SBIR, etc.)
- **Funding institute:** NIH
- **Fiscal year:** 2023
- **Award amount:** $2,567,084
- **Award type:** 5
- **Project period:** 2021-09-01 → 2026-05-31

## Primary source

NIH RePORTER: https://reporter.nih.gov/project-details/10691521

## Citation

> US National Institutes of Health, RePORTER application 10691521, Single-cell Mapping Center for Human Regulatory Elements and Gene Activity (5UM1HG012076-03). Retrieved via AI Analytics 2026-05-21 from https://api.ai-analytics.org/grant/nih/10691521. Licensed CC0.

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