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| Status |
Public on Jul 29, 2014 |
| Title |
KAP1(TRIM28/TIF1beta) represses differentiation-inducible genes in embryonic stem cells through cooperative binding with PRC1(Ring1b/Rnf2) and derepresses pluripotency-associated genes (ChIP-seq) |
| Organism |
Mus musculus |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
|
| Summary |
Embryonic stem (ES) cells express pluripotency-associated genes and repress differentiation-inducible genes. The activities of these genes are coordinately reversed during differentiation. The changes in the transcriptome upon conditional KAP1 knockout in ES cells overlapped with the changes during embryoid body formation. KAP1 repressed differentiation-inducible genes and derepressed pluripotency-associated genes in ES cells. KAP1 formed complexes with polycomb repressive complexes 1 (PRC1) through an interaction that was mediated by the KAP1 coiled-coil region. KAP1 and PRC1 bound cooperatively at the promoters of differentiation-inducible genes and repressed their transcription. In contrast, KAP1 bound the transcribed and flanking sequences of pluripotency-associated genes, did not enhance PRC1 binding, and derepressed their transcription. KAP1 had opposite effects on differentiation-inducible and pluripotency-associated gene transcription both in ES cells and in differentiating embryoid bodies. The region of KAP1 that mediated the interaction with PRC1 was required for KAP1 enhancement of PRC1 binding and for KAP1 repression of transcription at differentiation-inducible promoters. This region of KAP1 was not required for KAP1 suppression of PRC1 binding or for KAP1 derepression of transcription at pluripotency-associated promoters. The opposite effects of KAP1 on transcription of differentiation-inducible versus pluripotency-associated genes contributed to the reciprocal changes in their transcription during differentiation.
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| |
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| Overall design |
Analysis of the regions occupied by KAP1(TRIM28/TIF1beta) and by Ring1b(Rnf2) in mouse embryonic stem cells before and after conditional KAP fl/fl and Ring1b fl/fl knockout
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| |
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| Contributor(s) |
Kerppola TK, Cheng B, Ren X |
| Citation(s) |
24687849 |
| Submission date |
Apr 08, 2014 |
| Last update date |
Mar 08, 2019 |
| Contact name |
Tom Klaus Kerppola |
| E-mail(s) |
kerppola@umich.edu
|
| Organization name |
University of Michigan
|
| Department |
Biological Chemistry
|
| Lab |
Kerppola Laboratory
|
| Street address |
1150 West Medical Center Drive
|
| City |
Ann Arbor |
| State/province |
Michigan |
| ZIP/Postal code |
48109-0650 |
| Country |
USA |
| |
|
| Platforms (1) |
| GPL9185 |
Illumina Genome Analyzer (Mus musculus) |
|
| Samples (5)
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| This SubSeries is part of SuperSeries: |
| GSE56629 |
KAP1(TRIM28/TIF1beta) represses differentiation-inducible genes in embryonic stem cells through cooperative binding with PRC1(Ring1b/Rnf2) and derepresses pluripotency-associated genes |
|
| Relations |
| BioProject |
PRJNA256470 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE56628_KAP1+Ring1b_genes.txt.gz |
292.6 Kb |
(ftp)(http) |
TXT |
| GSE56628_KAP1+Ring1b_promoters.txt.gz |
238.4 Kb |
(ftp)(http) |
TXT |
| GSE56628_KAP1_in_KAP1flfl_wild_type_ES_cells.bed.gz |
1.6 Mb |
(ftp)(http) |
BED |
| GSE56628_KAP1_only_genes.txt.gz |
221.8 Kb |
(ftp)(http) |
TXT |
| GSE56628_KAP1_only_promoters.txt.gz |
228.7 Kb |
(ftp)(http) |
TXT |
| GSE56628_Ring1b_in_KAP1fl_KO_ES_cells.bed.gz |
171.3 Kb |
(ftp)(http) |
BED |
| GSE56628_Ring1b_in_Ring1bflfl_wild_type_ES_cells.bed.gz |
270.9 Kb |
(ftp)(http) |
BED |
| GSE56628_Ring1b_only_genes.txt.gz |
16.4 Kb |
(ftp)(http) |
TXT |
| GSE56628_Ring1b_only_promoters.txt.gz |
29.6 Kb |
(ftp)(http) |
TXT |
| Raw data not provided for this record |
| Processed data are available on Series record |
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