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Series GSE108506 Query DataSets for GSE108506
Status Public on Mar 28, 2018
Title The role of CHD7 in human central nervous system development (ChIP-Seq)
Organism Homo sapiens
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary CHARGE syndrome is a congenital disorder caused by mutations in Chromodomain Helicase DNA-binding domain 7 (CHD7) gene. We generated a cell line carrying HA-tag knock-in into the human CHD7 locus, mediated by CRISPR-Cas9 system. We then performed ChIP against HA antibody using the validated knock-in cells and subsequent high-throughput sequencing analysis.
 
Overall design Examination of histone modification and CHD7 binding sites in WT, CHD7-KD and CHARGE patient cells.
CHARGE patient raw data is not available in GEO due to patient privacy restrictions. The raw data is available via controlled access through JGA (Japanese Genotype-Phenotype Archive) by accession number JGAS00000000131.
 
Citation(s) 29440260
Submission date Dec 26, 2017
Last update date Mar 27, 2019
Contact name Tsukasa Sanosaka
E-mail(s) sanosaka@keio.jp
Organization name Keio University School of Medicine
Department Department of Physiology
Street address 35 Shinanomachi
City Shinjuku-ku
State/province Tokyo
ZIP/Postal code 1608582
Country Japan
 
Platforms (2)
GPL16791 Illumina HiSeq 2500 (Homo sapiens)
GPL24432 illumina HiSeq 2500 (Homo sapiens)
Samples (63)
GSM2902404 AF22_input
GSM2902405 AF22_H3K4me1
GSM2902406 AF22_H3K4me3
This SubSeries is part of SuperSeries:
GSE111327 Chromatin remodeler CHD7 regulates the stem cell identity of human neural progenitors
Relations
BioProject PRJNA427521
SRA SRP130911

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
GSE108506_RAW.tar 8.5 Gb (http)(custom) TAR (of BW)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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