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GEO help: Mouse over screen elements for information. |
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| Status |
Public on Oct 22, 2020 |
| Title |
ZNF143 mediates CTCF-bound promoter-enhancer loops required for murine hematopoietic stem and progenitor cell function |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by high throughput sequencing
Genome binding/occupancy profiling by high throughput sequencing
Other
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| Summary |
CCCTC binding factor (CTCF) is an important factor in the maintenance of chromatin chromatin interactions, yet the mechanism regulating its binding to chromatin is unknown. We demonstrate that zinc finger protein 143 (ZNF143) is a key regulator for CTCF bound promoter enhancer loops. In the murine genome, a large percentage of CTCF and ZNF143 DNA binding motifs are distributed 37 bp apart in the convergent orientation. Furthermore, deletion of ZNF143 leads to loss of CTCF binding on promoter and enhancer regions associated with gene expression changes. CTCF bound promoter enhancer loops are also disrupted after excision of ZNF143. ZNF143 CTCF bound promoter enhancer loops regulate gene expression patterns essential for maintenance of murine hematopoietic stem and progenitor cell integrity. Our data suggest a common feature of gene regulation that ZNF143 is a critical factor for CTCF bound promoter enhancer loops.
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| Overall design |
investigate 2 histone mark, 2 transcription factors, RNA expression and HiC interactions in two different cell types
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| Contributor(s) |
Zhou Q, Yu M, Tirado Magallanes R, Li B, Kong L, Guo M, Tan ZH, Lee S, Benoukraf T, Fullwood MJ, Osato M, Ren B, Tenen DG |
| Citation(s) |
33397967 |
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| Submission date |
Feb 03, 2020 |
| Last update date |
Jan 19, 2021 |
| Contact name |
Qi-Ling Zhou |
| E-mail(s) |
a0126780@u.nus.edu
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| Phone |
+65 90156477
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| Organization name |
National University of Sigapore
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| Department |
Cancer Science Institute
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| Lab |
Daniel G. Tenen's lab
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| Street address |
14 Medical Drive
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| City |
Singapore |
| ZIP/Postal code |
117599 |
| Country |
Singapore |
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| Platforms (2) |
| GPL19057 |
Illumina NextSeq 500 (Mus musculus) |
| GPL21103 |
Illumina HiSeq 4000 (Mus musculus) |
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| Samples (25)
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| Relations |
| BioProject |
PRJNA604623 |
| SRA |
SRP246995 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE144712_RAW.tar |
8.0 Gb |
(http)(custom) |
TAR (of BW, HIC) |
| GSE144712_ZNF143_HSLAM_st_DESeq2_FPKM.txt.gz |
1.6 Mb |
(ftp)(http) |
TXT |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
| Processed data are available on Series record |
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