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Series GSE71510 Query DataSets for GSE71510
Status Public on Nov 21, 2016
Title ARID1A loss impairs enhancer-mediated gene regulation and drives colon cancer in mice [HCT116_ChIP-seq]
Organism Homo sapiens
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary Genes encoding subunits of SWI/SNF chromatin remodeling complexes are collectively mutated in ~20% of all human cancers. Although ARID1A is the most frequent target of mutations, the mechanism by which its inactivation promotes tumorigenesis is unclear. Here, we demonstrate that Arid1a functions as a tumor suppressor in the mouse colon, but not the small intestine, and that invasive ARID1A-deficient adenocarcinomas resemble human colorectal cancer (CRC). These tumors lack deregulation of APC/beta-catenin, crucial gatekeepers in common forms of intestinal cancer. ARID1A normally targets SWI/SNF complexes to enhancers, where they function in coordination with transcription factors (TFs) to facilitate gene activation. ARID1B preserves SWI/SNF function in ARID1A-deficient cells, but defects in SWI/SNF targeting and control of enhancer activity cause extensive dysregulation of gene expression. These findings represent an advance in colon cancer modeling and implicate enhancer-mediated gene regulation as a principal tumor suppressor function of ARID1A.
 
Overall design ChIP-seq of three histone modifications (H3K27ac, H3K4m3, H3K4me1) and two SWI/SNF complex subunits (SMARCA4 and SMARCC1) in HCT116 colorectal cancer line for ARID1A WT and KO cells.
 
Contributor(s) Mathur R, Alver BH, Park PJ, Roberts CW
Citation(s) 27941798
Submission date Jul 29, 2015
Last update date May 15, 2019
Contact name Peter J Park
E-mail(s) peter_park@harvard.edu
Phone 617-432-7373
Organization name Harvard Medical School
Department Center for Biomedical Informatics
Street address 10 Shattuck St
City Boston
State/province MA
ZIP/Postal code 02115
Country USA
 
Platforms (1)
GPL11154 Illumina HiSeq 2000 (Homo sapiens)
Samples (18)
GSM1835982 ChIP-seq_HCT116_Parental_H3K27Ac
GSM1835983 ChIP-seq_HCT116_Heterozygous_H3K27Ac
GSM1835984 ChIP-seq_HCT116_Homozygous_H3K27Ac
This SubSeries is part of SuperSeries:
GSE71514 ARID1A loss impairs enhancer-mediated gene regulation and drives colon cancer in mice
Relations
BioProject PRJNA291423
SRA SRP061775

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
GSE71510_RAW.tar 1.4 Gb (http)(custom) TAR (of WIG)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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