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Series GSE65937 Query DataSets for GSE65937
Status Public on Nov 09, 2015
Title ChIP-Seq analysis to identify direct binding of ZNF165
Organism Homo sapiens
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary We found that the cancer testis antigen, ZNF165, is required for viability and modulates TGFβ-induced gene expression in mesenchymal, Claudin-Low, TNBC. To begin to define ZNF165's role in TNBC tumorigenesis, we performed ChIP-Seq analysis in the mesenchymal TNBC tumor derived cell line, WHIM12, stably expressing ZNF165-V5. This analysis uncovered 381 peaks associated with 410 genes and included TGFβ target genes, SMURF2 and SMAD, that promote negative TGFβ feedback regulation. Our results provide insight into how ZNF165 globally modulates TGFβ signaling and nominates ZNF165 candidate gene targets.
Overall design WHIM12 cells were stably infected ZNF165-V5 were grown to 75% confluency. Chromatin was isolated, sonicated and immunoprecipitated using a V5 antibody. Purifed ChIP-ed DNA was then sequence, aligned to hg19 and HOMER was justed to identify significantly enriched peaks.
Contributor(s) Whitehurst A, Maxfield K
Citation(s) 26567849
Submission date Feb 13, 2015
Last update date May 15, 2019
Contact name Angelique Whitehurst
Phone 214-645-6066
Organization name UT Southwestern
Department Simmons Cancer Center
Street address 5323 Harry Hines Blvd.
City Dallas
State/province TX
ZIP/Postal code 75390-8807
Country USA
Platforms (1)
GPL16791 Illumina HiSeq 2500 (Homo sapiens)
Samples (2)
GSM1611458 WHIM12 ZNF165 Input
GSM1611459 WHIM12 ZNF165 IP
This SubSeries is part of SuperSeries:
GSE63986 Integrative Functional Characterization of Cancer-Testis Antigens Defines Obligate Participation in Multiple Hallmarks of Cancer
BioProject PRJNA275441
SRA SRP055032

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Supplementary file Size Download File type/resource
GSE65937_RAW.tar 61.1 Mb (http)(custom) TAR (of BEDGRAPH)
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Raw data are available in SRA
Processed data provided as supplementary file

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