|
| Status |
Public on May 05, 2019 |
| Title |
Condensin II inactivation in interphase does not affect chromatin folding or gene expression |
| Organism |
Mus musculus |
| Experiment type |
Other
Expression profiling by high throughput sequencing
|
| Summary |
Condensin complexes have been proposed to play a prominent role in interphase chromatin organization and control of gene expression. Here, we report that the deletion of the central condensin II kleisin subunit Ncaph2 in differentiated mouse hepatocytes does not lead to significant changes in chromosome organization or in gene expression. Both observations challenge current views that implicate condensin in interphase chromosomal domain formation and in enhancer-promoter interactions. Instead, we suggest that the previously reported effects of condensin perturbation may result from their structural role during mitosis, which might indirectly impact the re-establishment of interphase chromosomal architecture after cell division.
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| Overall design |
This submission contains 2 biological replicates of Hi-C (TCC) , 4 replicates of RNA-seq from hepatocytes isolated from Ncaph2-/- mice.
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| Contributor(s) |
Abdennur N, Schwarzer W, Pekowska A, Shaltiel IA, Huber W, Haering C, Mirny L, Spitz F |
| Citation missing |
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| |
| Submission date |
Nov 05, 2018 |
| Last update date |
May 24, 2023 |
| Contact name |
Nezar Abdennur |
| E-mail(s) |
nezar@mit.edu
|
| Organization name |
MIT
|
| Lab |
Mirny
|
| Street address |
77 Massachusetts Ave
|
| City |
Cambridge |
| State/province |
MA |
| ZIP/Postal code |
02139 |
| Country |
USA |
| |
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| Platforms (1) |
| GPL13112 |
Illumina HiSeq 2000 (Mus musculus) |
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| Samples (6)
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| Relations |
| BioProject |
PRJNA504028 |
| SRA |
SRP167964 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE122157_NCAPH2.1000.cool.gz |
276.9 Mb |
(ftp)(http) |
COOL |
| GSE122157_NCAPH2.100000.cool.gz |
60.0 Mb |
(ftp)(http) |
COOL |
| GSE122157_NCAPH2.20000.cool.gz |
123.3 Mb |
(ftp)(http) |
COOL |
| GSE122157_NCAPH2.40000.cool.gz |
92.6 Mb |
(ftp)(http) |
COOL |
| GSE122157_NCAPH2_all_star_genome_minusAll.bw |
229.6 Mb |
(ftp)(http) |
BW |
| GSE122157_NCAPH2_all_star_genome_minusUniq.bw |
172.0 Mb |
(ftp)(http) |
BW |
| GSE122157_NCAPH2_all_star_genome_plusAll.bw |
237.0 Mb |
(ftp)(http) |
BW |
| GSE122157_NCAPH2_all_star_genome_plusUniq.bw |
179.7 Mb |
(ftp)(http) |
BW |
| GSE122157_RAW.tar |
660.3 Mb |
(http)(custom) |
TAR (of COOL) |
| GSE122157_TAMVsNCaph2.genes_de.xlsx |
3.4 Mb |
(ftp)(http) |
XLSX |
SRA Run Selector |
| Processed data provided as supplementary file |
| Processed data are available on Series record |
| Raw data are available in SRA |
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