NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Series GSE122157 Query DataSets for GSE122157
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.
 
Overall design This submission contains 2 biological replicates of Hi-C (TCC) , 4 replicates of RNA-seq from hepatocytes isolated from Ncaph2-/- mice.
 
Contributor(s) Abdennur N, Schwarzer W, Pekowska A, Shaltiel IA, Huber W, Haering C, Mirny L, Spitz F
Citation missing Has this study been published? Please login to update or notify GEO.
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
 
Platforms (1)
GPL13112 Illumina HiSeq 2000 (Mus musculus)
Samples (6)
GSM3457018 HiC-TCC_NCAPH2_Rep1
GSM3457019 HiC-TCC_NCAPH2_Rep2
GSM3457020 RNAseq_NCAPH2_Rep1
Relations
BioProject PRJNA504028
SRA SRP167964

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

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 SelectorHelp
Processed data provided as supplementary file
Processed data are available on Series record
Raw data are available in SRA

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap