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| Status |
Public on Jan 18, 2021 |
| Title |
Dynamic CTCF occupancy during differentiation rewires cis-regulatory module interactions essential for development [Capture Hi-C] |
| Organism |
Homo sapiens |
| Experiment type |
Other
|
| Summary |
The ubiquitously expressed transcription factor CTCF maintains higher-order chromatin structure in multiple cell types and species through well-established common mechanisms. Here we define a new role for CTCF in tissue-specific gene regulation revealed by serial examinations of genome-wide CTCF occupancy during red blood cell (RBC) differentiation of human CD34+ hematopoietic stem/progenitor cells (HSPCs). We identified 1753 dynamic, erythroid developmental stage-specific CTCF chromatin occupancy sites that occur through both direct DNA binding and indirectly via interactions with lineage-specific transcription factors. These dynamic sites display features of transcriptional enhancers, function as hubs of cis-regulatory elements (CREs) interactome, and are enriched for single nucleotide polymorphisms (SNPs) associated with RBC traits. Precise deletion of CTCF binding motifs from those dynamically bound sites alternated local CRE-interactions and disrupted erythropoiesis. Our study highlights novel, lineage-specific functions for CTCF and provides new insights into how genetic variation regulates erythropoiesis
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| Overall design |
Capture-C libraries were constructed on HUDEP2 and mutant cells with or without 3-day maturation
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| |
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| Contributor(s) |
Qi Q, Cheng L, He Y, Cheng Y |
| Citation(s) |
33512425 |
| Submission date |
May 16, 2019 |
| Last update date |
Mar 23, 2021 |
| Contact name |
Yong Cheng |
| E-mail(s) |
yong.cheng@stjude.org
|
| Organization name |
St. Jude Childrens Research Hospital
|
| Street address |
262 Danny Thomas Place
|
| City |
Memphis |
| State/province |
TN |
| ZIP/Postal code |
38105 |
| Country |
USA |
| |
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| Platforms (1) |
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| Samples (4)
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| This SubSeries is part of SuperSeries: |
| GSE131055 |
Dynamic CTCF occupancy during differentiation rewires cis-regulatory module interactions essential for development |
|
| Relations |
| BioProject |
PRJNA543246 |
| SRA |
SRP198622 |
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