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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
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
BioProject PRJNA340241
SRA SRP083009

Download family Format
SOFT formatted family file(s) SOFTHelp
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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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