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| Status |
Public on May 28, 2024 |
| Title |
The lncRNA DUBR is regulated by CTCF and coordinates chromatin landscape and gene expression in hematopoietic cells [ChIRP-Seq] |
| Organism |
Homo sapiens |
| Experiment type |
Other
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| Summary |
Master hematopoietic transcription factors and long non-coding RNAs (lncRNAs) coordinate shaping lineage-restricted gene expression programs during hematopoietic differentiation. The architectural protein CCCTC-binding factor (CTCF) has emerged as an important regulator of gene expression in cell differentiation. However, the relationship and its regulatory effect on lncRNA genes in hematopoiesis remains elusive. We demonstrated that CTCF constrains DUBR transcription throughout erythroid differentiation, which was highly expressed in human hematopoietic stem and progenitor cells (HSPC) but depleted in erythroblasts. DUBR depletion enhances the expression of myeloid-erythroid cell differentiation genes by coordinating genome-wide enhancer activation and reducing the activity of the transcriptional repressor HES1 at gene promoters. Our results indicate that CTCF prevents DUBR transcription to coordinate a myeloid-erythroid gene expression program.
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| Overall design |
To analyze the contribution of lncRNA DUBR in erythroid gene expression, we targeted DUBR by antisense biotin-tagged probes and analyzed its associated genomic regions.
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| Contributor(s) |
Núñez Martínez HN, Tapia Úrzua G, Cerecedo Castillo ÁJ, Peralta Álvarez CA, Guerrero G, Huarte M, Recillas Targa F |
| Citation missing |
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| Submission date |
May 28, 2024 |
| Last update date |
May 29, 2024 |
| Contact name |
Hober Nuñez |
| E-mail(s) |
hnunez@ifc.unam.mx
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| Organization name |
IFC-UNAM
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| Department |
Molecular Genetics
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| Lab |
Chromatin and Epigenetics
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| Street address |
Cto. Exterior s/n
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| City |
Mexico city |
| State/province |
CDMX |
| ZIP/Postal code |
04510 |
| Country |
Mexico |
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| Platforms (1) |
| GPL16791 |
Illumina HiSeq 2500 (Homo sapiens) |
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| Samples (6)
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| Relations |
| BioProject |
PRJNA1117466 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE268501_RAW.tar |
905.3 Mb |
(http)(custom) |
TAR (of BIGWIG) |
SRA Run Selector |
| Raw data are available in SRA |
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