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Expansion of the Human Transcription Factor Genome-wide Binding Map Resource

Award Number: U24HG012922
ORGANIZATION: NATIONAL HUMAN GENOME RESEARCH INSTITUTE
OPDIV: NIH
AWARD CLASS: COOPERATIVE AGREEMENT
AWARD ACTIVITY TYPE: SCIENTIFIC/HEALTH RESEARCH (INCLUDES SURVEYS)
PERIOD OF PERFORMANCE START DATE: 04/04/2024
PERIOD OF PERFORMANCE END DATE: 01/31/2029

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Expansion of the Human Transcription Factor Genome-wide Binding Map Resource - Project Summary/Abstract The human genome contains more than 1,600 transcription factor-coding genes. Transcription factors (TFs) play essential roles in gene regulation and are relevant to all aspects of human biology, from development to disease mechanisms. Defining the activity and function of TFs is vital to understanding gene expression, and the most informative assay for TF activity is the genome-wide identification of loci where a TF interacts with DNA. These loci are classically measured by ChIP-seq (chromatin immunoprecipitation followed by high-throughput sequencing) or variants such as CETCh-seq (CRISPR epitope-tagged ChIP-seq). As members of the ENCODE Consortium, the Myers/Mendenhall group generated 1,203 ChIP-/CETCh-seq maps for 676 human TFs, and nine other groups produced a combined 742 maps for 463 additional TFs. However, ~700 human TFs still lack genome-wide binding maps. This proposal aims to expand this data resource, producing binding maps for 600 more human TFs using an established production pipeline that can begin immediately. The first goal is to complete 200 binding maps in the HepG2 cell line, thus generating data for the vast majority of TFs expressed in this cell line. This resource will be powerful for many analyses, representing a near-complete overview of all active TFs in this cell type. The second goal is to generate binding maps for 400 human TFs with no ChIP data and do so in the cell types that express the TFs. Over sixty percent of these TFs will be assayed in induced pluripotent stem cells (iPSCs), neuronal precursor cells (NPCs), or neuronal cells differentiated from these, and the remaining TFs in a variety of other cell lines. These cells have been used successfully in the pipeline and have other important genome-wide assay data, including ATAC-seq, RNA-seq, various histone modification ChIP-seq experiments, and 3D connectivity data. The resource produced will represent a greatly expanded database of DNA binding maps for most human TFs; these experiments have long been a goal for biology and will enable many analyses to comprehensively define the grammar of TF gene regulation.


Issue Date FY	Funding FY	Legal Entity Name	Legal Entity Address	Legal Entity City	Legal Entity State	Legal Entity Zip Code	Legal Entity COUNTY	Legal Entity COUNTRY	Assistance Listing	Award Code	Budget Year	Action Date	Action Type	Action Amount

Issue Date FY: 2026 ( Subtotal = $661,314 )
2026	2026	HUDSONALPHA INSTITUTE FOR BIOTECHNOLOGY	601 GENOME WAY	HUNTSVILLE	AL	35806	MADISON	USA	Human Genome Research	001	3	2/26/2026	NON-COMPETING CONTINUATION	$0
2026	2026	HUDSONALPHA INSTITUTE FOR BIOTECHNOLOGY	601 GENOME WAY	HUNTSVILLE	AL	35806	MADISON	USA	Human Genome Research	000	3	1/28/2026	NON-COMPETING CONTINUATION	$661,314
														Subtotal = $661,314

Issue Date FY: 2025 ( Subtotal = $673,380 )
2025	2025	HUDSONALPHA INSTITUTE FOR BIOTECHNOLOGY	601 GENOME WAY	HUNTSVILLE	AL	35806	MADISON	USA	Human Genome Research	000	2	4/1/2025	NON-COMPETING CONTINUATION	$606,043
2025	2025	HUDSONALPHA INSTITUTE FOR BIOTECHNOLOGY	601 GENOME WAY	HUNTSVILLE	AL	35806	MADISON	USA	Human Genome Research	001	2	5/13/2025	NON-COMPETING CONTINUATION	$67,337
														Subtotal = $673,380

Issue Date FY: 2024 ( Subtotal = $682,717 )
2024	2024	HUDSONALPHA INSTITUTE FOR BIOTECHNOLOGY	601 GENOME WAY	HUNTSVILLE	AL	35806	MADISON	USA	Human Genome Research	001	1	5/30/2024	NEW	$55,732
2024	2024	HUDSONALPHA INSTITUTE FOR BIOTECHNOLOGY	601 GENOME WAY	HUNTSVILLE	AL	35806	MADISON	USA	Human Genome Research	000	1	4/4/2024	NEW	$626,985
														Subtotal = $682,717

Grand Total All Awards = $2,017,411

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Expansion of the Human Transcription Factor Genome-wide Binding Map Resource

Award Number: U24HG012922

ORGANIZATION: NATIONAL HUMAN GENOME RESEARCH INSTITUTE

OPDIV: NIH

AWARD CLASS: COOPERATIVE AGREEMENT

AWARD ACTIVITY TYPE: SCIENTIFIC/HEALTH RESEARCH (INCLUDES SURVEYS)

PERIOD OF PERFORMANCE START DATE: 04/04/2024

PERIOD OF PERFORMANCE END DATE: 01/31/2029

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