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Series GSE187487 Query DataSets for GSE187487
Status Public on Dec 31, 2021
Title Regulation of Chromatin Looping by CTCF and Cohesin
Organism Mus musculus
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary As part of a study to understand the dynamics of chromatin looping and its regulation by CTCF and cohesin, we have determined the genome-wide binding profiles of CTCF and cohesin (Smc1a subunit) in a genome-edited mouse Embryonic Stem Cell (mESC) line referred to as clone C65. We have also performed 3D genome mapping using Micro-C in another genome-edited mESC line referred to as clone C36.
Overall design We performed Micro-C in the mESC clone C36 (5 replicates) and ChIP-seq in the mESC clone C65 (input, normal rabbit IgG, rabbit anti-CTCF and rabbit anti-Smc1a antibodies, single replicates).
Contributor(s) Hansen AS, Hsieh TS, Cattoglio C, Gabriele M, Jha A, Brandao H, Mirny L, Grosse-Holz SB, Zechner C, Dailey GM
Citation(s) 35420890
Submission date Nov 03, 2021
Last update date May 22, 2023
Contact name Xavier Darzacq
Phone 510-642-0884
Organization name University of California, Berkeley
Department Molecular and Cell Biology
Lab Darzacq Lab
Street address 475D Li Ka Shing Center
City Berkeley
State/province CA
ZIP/Postal code 94720
Country USA
Platforms (1)
GPL21103 Illumina HiSeq 4000 (Mus musculus)
Samples (9)
GSM5668630 Micro-C_C36_rep1
GSM5668631 Micro-C_C36_rep2
GSM5668632 Micro-C_C36_rep3
BioProject PRJNA777586
SRA SRP344404

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Supplementary file Size Download File type/resource
GSE187487_C36.mcool 1.6 Gb (ftp)(http) MCOOL 97.2 Mb (ftp)(http) BW 85.8 Mb (ftp)(http) BW 96.9 Mb (ftp)(http) BW 112.7 Mb (ftp)(http) BW
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Processed data are available on Series record

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