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Series GSE202960 Query DataSets for GSE202960
Status Public on May 20, 2022
Title Sox9 directs divergent epigenomic states in brain tumor subtypes (ChIP-Seq)
Organisms Homo sapiens; Mus musculus
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary The goal of this study was to profile active H3K27ac marks between autochthonous mouse models of high-grade glioma (HGG) and ependymoma (EPN). Furthermore, with the objective of how transcription factor Sox9 affect H3K27ac states in these two models, we also profiled H3K27ac status between HGG and EPN after Sox9 overexpression (Sox9-GOF) or deletion (Sox9-LOF) in each of these models. In addition, we extended our studies to evaluate both H3K27ac and Sox9 states in human HGG and mouse EPN derived tumor cells.
 
Overall design Chromatin immunoprecipitation (ChIP-seq) for H3K27ac in tumors from mouse models HGG, EPN and human HGG; ChIP-Seq for Sox9 in human HGG; ChIP-Seq for Sox9 from mouse EPN derived tumor cells. All experiments performed in independent biological replicates except for human HGG and mouse EPN derived cells.
 
Contributor(s) Sardar D, Chen H, Lozzi B, Varadharajan S, Mack S, Deneen B
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Submission date May 13, 2022
Last update date May 20, 2022
Contact name Debosmita Sardar
E-mail(s) sardar@bcm.edu
Organization name Baylor College of Medicine
Street address 1 Baylor Plaza
City Houston
ZIP/Postal code 77030
Country USA
 
Platforms (3)
GPL19057 Illumina NextSeq 500 (Mus musculus)
GPL21626 NextSeq 550 (Mus musculus)
GPL21697 NextSeq 550 (Homo sapiens)
Samples (25)
GSM6139230 mouse HGG, control, Input, rep1
GSM6139231 mouse HGG, control, ChIP-H3K27ac, rep1
GSM6139232 mouse HGG, control, Input, rep2
This SubSeries is part of SuperSeries:
GSE202961 Sox9 directs divergent epigenomic states in brain tumor subtypes
Relations
BioProject PRJNA837888

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
GSE202960_EPN-GOF1_H3K27ac_Normalized.bw 263.0 Mb (ftp)(http) BW
GSE202960_EPN-GOF2_H3K27ac_Normalized.bw 248.8 Mb (ftp)(http) BW
GSE202960_EPN-control1_H3K27ac_Normalized.bw 259.3 Mb (ftp)(http) BW
GSE202960_EPN-control2_H3K27ac_Normalized.bw 260.7 Mb (ftp)(http) BW
GSE202960_HGG-GOF1_H3K27ac_Normalized.bw 265.3 Mb (ftp)(http) BW
GSE202960_HGG-GOF2_H3K27ac_Normalized.bw 264.0 Mb (ftp)(http) BW
GSE202960_HGG-LOF1_H3K27ac_Normalized.bw 240.5 Mb (ftp)(http) BW
GSE202960_HGG-LOF2_H3K27ac_Normalized.bw 265.8 Mb (ftp)(http) BW
GSE202960_HGG-control1_H3K27ac_Normalized.bw 259.9 Mb (ftp)(http) BW
GSE202960_HGG-control2_H3K27ac_Normalized.bw 272.6 Mb (ftp)(http) BW
GSE202960_humanHGG_H3K27ac_Normalized.bw 271.5 Mb (ftp)(http) BW
GSE202960_humanHGG_Sox9_Normalized.bw 225.8 Mb (ftp)(http) BW
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Raw data are available in SRA
Processed data are available on Series record

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