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Series GSE89179 Query DataSets for GSE89179
Status Public on Sep 03, 2017
Title CHD1 regulates cell fate determination by activation of differentiation-induced genes
Organism Homo sapiens
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Expression profiling by high throughput sequencing
Summary We describe here a novel role for CHD1 in regulating the osteoblast cell fate by studying the effect of CHD1 depletion on the epigenetic landscape and on mRNA expression in mesenchymal stem cells (MSC) (Simonsen et al. 2012) and fetal Osteoblast (hFOB 1.19) (Harris et al. 1995) during osteoblast differentiation.
 
Overall design In this study we performed ChIP-seq and RNA-seq experiments in two different cell lines namely MSC and FOB in undifferentiated (Und), osteoblast (Ob) or adipocyte differentiated (Ad) condition. ChIP-seq was done for H2A.Z, H2Bub1, H3.3, RNAPII and CHD1 in osteoblast differentiated FOB with control or CHD1 siRNA treatment (siCON, siCHD1 respectively). In MSC ChIP-seq was performed for H3K4me3, H3K27me3, H3K27ac and CHD1.
 
Contributor(s) Baumgart S, Johnsen S
Citation(s) 28475736
Submission date Oct 25, 2016
Last update date May 15, 2019
Contact name Simon Joschka Baumgart
E-mail(s) simon.baumgart-1@zentr.uni-goettingen.de
Organization name Göttingen Medical Center
Department Allgemeine und Viszeralchirurgie - Surgery
Lab Tumorepigenetic , Prof. Steven A. Johnsen
Street address Justus-von-Liebig Weg 11
City Göttingen
State/province Lower Saxony
ZIP/Postal code 37077
Country Germany
 
Platforms (1)
GPL11154 Illumina HiSeq 2000 (Homo sapiens)
Samples (35)
GSM2359988 CHD1_ChIPseq_Und
GSM2359989 CHD1_ChIPseq_Ad
GSM2359990 CHD1_ChIPseq_Ob
Relations
BioProject PRJNA350526
SRA SRP092061

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
GSE89179_RAW.tar 2.3 Gb (http)(custom) TAR (of BIGWIG)
GSE89179_RNAseq_hMSC_and_hFOB1-19.xlsx 13.2 Mb (ftp)(http) XLSX
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file
Processed data are available on Series record

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