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GEO help: Mouse over screen elements for information. |
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| Status |
Public on Sep 28, 2013 |
| Title |
Transcription factor binding in human cells occurs in dense clusters formed around cohesin anchor sites [GP5d/siRAD21 ChIP-Seq experiments] |
| Organism |
Homo sapiens |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
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| Summary |
During cell division, transcription factors (TFs) are removed from chromatin twice, during DNA synthesis, and during condensation of chromosomes. How TFs can efficiently find their sites following these stages has been unclear. Here, we have analyzed the binding pattern of expressed TFs in human colorectal cancer cells. We find that binding of TFs is highly clustered, and that the clusters are enriched in binding motifs for several major TF classes. Strikingly, almost all clusters are formed around cohesin, and loss of cohesin decreases both DNA accessibility and binding of TFs to clusters. We show that cohesin remains bound in S phase, holding the nascent sister chromatids together at the TF cluster sites. Furthermore, cohesin remains bound to the cluster sites when TFs are evicted in early M-phase. These results suggest that cohesin binding functions as a cellular memory that promotes re- stablishment of TF clusters after DNA replication and chromatin condensation.
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| Overall design |
Examination of TF binding by ChIP-seq in a CRC cell-line treated with non-targeting siRNA, or siRNA specific to the cohesin subunit RAD21.
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| Contributor(s) |
Enge M, Yan J |
| Citation(s) |
23953112 |
| Submission date |
Sep 27, 2013 |
| Last update date |
May 15, 2019 |
| Contact name |
Martin Enge |
| E-mail(s) |
martin.enge@ki.se
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| Organization name |
Karolinska Institute
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| Department |
Dep of Oncology-Pathology
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| Street address |
CCK, Z4
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| City |
Stockholm |
| ZIP/Postal code |
S-171 76 |
| Country |
Sweden |
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| Platforms (1) |
| GPL11154 |
Illumina HiSeq 2000 (Homo sapiens) |
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| Samples (28)
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| Relations |
| BioProject |
PRJNA221781 |
| SRA |
SRP030504 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE51234_RAW.tar |
8.7 Mb |
(http)(custom) |
TAR (of TXT) |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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