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| Status |
Public on Aug 21, 2023 |
| Title |
Genome-wide Transcription Factor binding maps reveal cell-specific changes in the regulatory architecture of human HSPC [ChIP-seq] |
| Organism |
Homo sapiens |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
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| Summary |
Hematopoietic stem and progenitor cells (HSPCs) rely on a complex interplay of transcription factors (TFs) to regulate their differentiation into mature blood cells. A heptad of TFs - FLI1, ERG, GATA2, RUNX1, TAL1, LYL1, LMO2 - has been shown to bind to regulatory elements in bulk CD34+ HSPCs. However, whether specific combinations of these TFs have distinct roles in regulating hematopoietic differentiation remained unknown. In this study, we mapped the genome-wide binding profiles of these TFs and other chromatin-associated markers in distinct HSPC subsets (HSC, CMP, GMP, MEP). We found that the heptad occupancy and enhancer-promoter interactions varied significantly across cell types and were associated with cell-type specific gene expression. Moreover, we observed distinct regulatory elements that were enriched with specific combinations of TFs, such as stem-cell specific elements with ERG, and myeloid and megakaryocyte-erythroid specific elements with combinations of FLI1, RUNX1, GATA2, TAL1, LYL1, and LMO2. These findings suggest that specific combinations of TFs play critical roles in the regulation of hematopoietic differentiation, and provide a valuable resource for the development of targeted therapies to manipulate specific HSPC subsets.
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| Overall design |
ChIP
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| Contributor(s) |
Subramanian S, Thoms J, Pimanda J |
| Citation(s) |
37595278 |
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| Submission date |
May 01, 2023 |
| Last update date |
Aug 22, 2023 |
| Contact name |
Julie Thoms |
| E-mail(s) |
j.thoms@unsw.edu.au
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| Organization name |
UNSW Sydney
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| Department |
Adult Cancer Program
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| Street address |
Level 2, C25 Lowy Cancer Research Centre, UNSW Sydney, High St
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| City |
Randwick |
| State/province |
NSW |
| ZIP/Postal code |
2052 |
| Country |
Australia |
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| Platforms (1) |
| GPL24676 |
Illumina NovaSeq 6000 (Homo sapiens) |
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| Samples (8)
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| This SubSeries is part of SuperSeries: |
| GSE231486 |
Genome-wide Transcription Factor binding maps reveal cell-specific changes in the regulatory architecture of human HSPC |
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| Relations |
| BioProject |
PRJNA965793 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE231425_RAW.tar |
1.2 Gb |
(http)(custom) |
TAR (of BW) |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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