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Series GSE90994 Query DataSets for GSE90994
Status Public on May 03, 2017
Title CTCF and cohesin regulate chromatin loop stability with distinct dynamics
Organism Mus musculus
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary The study investigates the nuclear organization and the binding dynamics of CTCF and cohesin by super-resolution microscopy and ChIP-seq. We determined the genome-wide binding profile of CTCF and Rad21 cohesin subunit in wild type mouse ES cells and compared them to a double FLAG-Halo-mCTCF/mRad21-SNAPf-V5 knock-in mES line, generated by CRISPR/Cas9-mediated genome editing to perform imaging experiments.
Overall design ChIP-Seq of CTCF and Rad21 cohesin subunit in wild type mouse ES cells (WT) and in mouse ES cells homozygous for FLAG-Halo-CTCF and Rad21-SNAPf-V5 (C59 clone). ChIP-Seq libraries were prepared independently from two ChIP biological replicates, using normal serum IgGs as a control, and including total inputs as reference datasets.
Web link
Contributor(s) Sejr Hansen A, Cattoglio C, Pustova I, Tjian R, Darzacq X
Citation(s) 28467304, 31205001
Submission date Dec 07, 2016
Last update date Jun 24, 2019
Contact name Robert Tjian
Phone (510) 642-0884
Organization name UC Berkeley
Department MCB
Lab Tjian Lab
Street address University of California, Berkeley 450 Li Ka Shing #3370
City Berkeley
State/province CA
ZIP/Postal code 94720
Country USA
Platforms (1)
GPL21103 Illumina HiSeq 4000 (Mus musculus)
Samples (8)
GSM2418857 WT_input
GSM2418858 WT_IgG_ChIPSeq
GSM2418859 WT_Rad21_ChIPSeq
BioProject PRJNA356611
SRA SRP094705

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
GSE90994_RAW.tar 1.4 Gb (http)(custom) TAR (of BW, TXT)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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