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Series GSE86092 Query DataSets for GSE86092
Status Public on Aug 22, 2017
Title Transcription factors enriched in tumor-associated enhancers in VHL-deficient ccRCC
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. We profiled histone modifications from VHL-deficient ccRCC primary tumors and cell lines. We show that ccRCCs exhibit a pervasive gain of enhancers around hypoxic and metabolic transcriptional targets. Motif analysis using HOMER revealed significant enrichment of AP-1, ETS, NFĸB and HIFα in tumor enhancers. We generated ChIP-seq binding data for c-Jun, ETS1, NFĸB, and P300, a histone acetyltransferase, in 786-O cells. ChIP-seq profiles of HIF2α and HIF1β in 786-O were already generated previously (GSE34871)
 
Overall design Transcription factor 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
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 (8)
GSM2293476 786-O ETS1 ChIP-seq
GSM2293477 786-O NFkb ChIP-seq
GSM2293478 786-O P300 ChIP-seq
This SubSeries is part of SuperSeries:
GSE86095 VHL deficiency drives enhancer activation of oncogenes in clear cell renal cell carcinoma
Relations
BioProject PRJNA340241
SRA SRP083009

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
GSE86092_RAW.tar 2.3 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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