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| Status |
Public on May 07, 2023 |
| Title |
Stage-specific erythroid cell three-dimensional chromatin architecture and transcription factors binding provide insight of human erythropoiesis [CUT&RUN] |
| Organism |
Homo sapiens |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
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| Summary |
Mammalian erythroid cells development can be divided into three period: hematopoietic stem and progenitor cells (HSPC), erythroid progenitor (Ery-Pro) and erythroid precursor (Ery-Pre). To better understand human erythropoiesis and its regulation, we performed genome-wide studies of chromatin architecture, enhancer and select transcription factors binding, and transcriptomics profiling utilizing modified strategy to obtain defined progenitor and precursor populations from primary human erythroid cells. Integration and analysis of these data reveals that the TAD structure is stable but promoter - enhancer interactions are highly dynamic in a stage specific manner. Erythroid master regulator - GATA1 involves in the P-E interactions stepwisely. GATA1 binding is largely stable in erythroid progenitor and precursor, but dynamic GATA1 binding during this process regulate a productive erythroid gene expression and local chromatin rewiring. Additionally, we also have showed that dosage of GATA1 control the erythroid progenitor behavior and the erythroid progression. The valuable chromatin architecture and epigenome data will provide more comprehensive insight of human erythropoiesis and dynamic gene regulation of cellular differentiation even more broadly.
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| Overall design |
CUT&RUN assay for H3K27ac, GATA1, GATA2, ETV6, RUNX1, CEBPA and IgG in human cord blood CD34+ cells (HSPC) as well as derived erythroid progenitor (Ery-Pro) and (Ery-Pre) precursor; Also CUT&RUN for GATA1 of WT, GATA1 binding site1 KO, GATA1 binding site 1&2 KO, siControl and siGATA1 differentiaed HUDEP-1 cells
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| Contributor(s) |
Li D, Lee H |
| Citation(s) |
37254808 |
| BioProject |
PRJNA882139 |
| |
| Submission date |
Oct 04, 2022 |
| Last update date |
Jun 02, 2023 |
| Contact name |
Dong Li |
| E-mail(s) |
lidongpaul@gmail.com
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| Organization name |
Peking University
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| Department |
College of Life Science
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| Lab |
Hsiang-Ying (Sherry) Lee
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| Street address |
No.5 Yiheyuan Road, Haidian District,
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| City |
Beijing |
| State/province |
Beijing |
| ZIP/Postal code |
100871 |
| Country |
China |
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| Platforms (1) |
| GPL24676 |
Illumina NovaSeq 6000 (Homo sapiens) |
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| Samples (55)
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| This SubSeries is part of SuperSeries: |
| GSE214811 |
Stage-specific erythroid cell three-dimensional chromatin architecture and transcription factors binding provide insight of human erythropoiesis |
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