Genomics

Dataset Information

3

Transcription factor binding in human cells occurs in dense clusters formed around cohesin anchor sites


ABSTRACT: 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. Examination of TF binding by ChIP-seq in LoVo CRC cell-lines.

SUBMITTER: Martin Enge   Jian Yan 

PROVIDER: E-GEOD-49402 | ArrayExpress | 2013-08-15

SECONDARY ACCESSION(S): GSE49402SRP028819PRJNA215231

REPOSITORIES: GEO, ArrayExpress, ENA

Dataset's files

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E-GEOD-49402.idf.txt Idf
E-GEOD-49402.processed.1.zip Processed
E-GEOD-49402.sdrf.txt Txt
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Publications

Transcription factor binding in human cells occurs in dense clusters formed around cohesin anchor sites.

Yan Jian J   Enge Martin M   Whitington Thomas T   Dave Kashyap K   Liu Jianping J   Sur Inderpreet I   Schmierer Bernhard B   Jolma Arttu A   Kivioja Teemu T   Taipale Minna M   Taipale Jussi J  

Cell 20130801 4


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 aroun  ...[more]

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