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Series GSE86087 Query DataSets for GSE86087
Status Public on Aug 22, 2017
Title cis-regulatory landscape in ccRCC [cell lines]
Organism Homo sapiens
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary VHL loss is the most common genetic alteration event in ccRCC, but its effect on epigenetic landscape has not been elucidated previously. By performing histone modifications (H3K27ac, H3K4me1, H3K4me3) from ccRCC cell lines, we describe the genome-wide cis-regulatory landscapes of VHL-deficient ccRCC tumors. We show that ccRCCs exhibit a pervasive gain of enhancers around hypoxic and metabolic transcriptional targets.
 
Overall design Histone ChIP-Seq in ccRCC cell lines
 
Contributor(s) Yao X, Tan P
Citation(s) 28893800
Submission date Aug 26, 2016
Last update date May 15, 2019
Contact name Xiaosai Yao
E-mail(s) xiaosai.yao@gmail.com, yao.xiaosai@gene.com
Phone +65 68088271
Organization name Genome Institute of Singapore
Street address 60 Biopolis Street, Genome, #02-01
City Singapore
ZIP/Postal code 138672
Country Singapore
 
Platforms (1)
GPL16791 Illumina HiSeq 2500 (Homo sapiens)
Samples (39)
GSM2293310 86049102 H3K4me3 ChIP-seq
GSM2293311 86049102 Input rep1
GSM2293312 86049102 H3K4me1 ChIP-seq
This SubSeries is part of SuperSeries:
GSE86095 VHL deficiency drives enhancer activation of oncogenes in clear cell renal cell carcinoma
Relations
BioProject PRJNA340237
SRA SRP083003

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
GSE86087_RAW.tar 18.5 Mb (http)(custom) TAR (of BED)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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