Similar studies for GEO DataSets (Select 200116211) - GEO DataSets

(Submitter supplied) mTORC1 is a conserved central controller of cell growth, which is commonly activated in hepatocellular carcinoma (HCC), driving liver tumorigenesis. In addition to its established cytoplasmic functions, mTORC1 is found in the nucleus where it regulates transcription by all three major RNA polymerases. However, precisely how mTORC1 controls gene expression remains poorly understood. Herein we show that mTORC1 interacts with the BAF SWI/SNF complex and regulates genome-wide chromatin remodeling through ARID1A. more...

Organism:: Homo sapiens

Type:: Expression profiling by high throughput sequencing

Platform:: GPL20301
4 Samples

Download data: TXT

Series

Accession:: GSE159164

ID:: 200159164

PubMed Full text in PMC Similar studies Analyze with GEO2R SRA Run Selector

Select item 2001591634.

ATAC-seq in shControl Huh7 and shARID1A Huh7 cells without or with rapamycin treatment

(Submitter supplied) mTORC1 is a conserved central controller of cell growth, which is commonly activated in hepatocellular carcinoma (HCC), driving liver tumorigenesis. In addition to its established cytoplasmic functions, mTORC1 is found in the nucleus where it regulates transcription by all three major RNA polymerases. However, precisely how mTORC1 controls gene expression remains poorly understood. Herein we show that mTORC1 interacts with the BAF SWI/SNF complex and regulates genome-wide chromatin remodeling through ARID1A. more...

Organism:: Homo sapiens

Type:: Genome binding/occupancy profiling by high throughput sequencing

Platform:: GPL20301
4 Samples

Download data: TXT

Series

Accession:: GSE159163

ID:: 200159163

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 2001323595.

RNA-seq of KYSE410 cells expressing control, USP11 or ARID1A-targeting shRNAs

(Submitter supplied) We examined gene expression level in KYSE410 cells expressing control, USP11 or ARID1A-targeting shRNAs to study the mechanism underlying the tumor suppressive effect of ARID1A and USP11.

Organism:: Homo sapiens

Type:: Expression profiling by high throughput sequencing

Platform:: GPL24676
9 Samples

Download data: TXT

Series

Accession:: GSE132359

ID:: 200132359

Select item 2001104506.

Catalytic subunits switch drives resistance to EZH2 inhibitors in ARID1A-mutated cells

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:: Homo sapiens

Type:: Genome binding/occupancy profiling by high throughput sequencing; Expression profiling by high throughput sequencing

Platform:: GPL18573
7 Samples

Download data: TXT

Series

Accession:: GSE110450

ID:: 200110450

PubMed Full text in PMC Similar studies

Select item 2001104497.

Catalytic subunits switch drives resistance to EZH2 inhibitors in ARID1A-mutated cells [RNA-seq]

(Submitter supplied) The SWI/SNF chromatin remodeling complex is altered in ~20% of human cancers. ARID1A, a component of the SWI/SNF chromatin-remodeling complex, is the most frequently mutated epigenetic regulator in human cancers. Inactivation of the SWI/SNF complex is synthetically lethal with inhibition of EZH2 activity. EZH2 inhibitors are entering clinical trials for specific tumor types with SWI/SNF mutations. more...

Organism:: Homo sapiens

Type:: Expression profiling by high throughput sequencing

Platform:: GPL18573
5 Samples

Download data: TXT

Series

Accession:: GSE110449

ID:: 200110449

PubMed Full text in PMC Similar studies Analyze with GEO2R SRA Run Selector

Select item 2001104488.

Catalytic subunits switch drives resistance to EZH2 inhibitors in ARID1A-mutated cells [ChIP-seq]

(Submitter supplied) The SWI/SNF chromatin remodeling complex is altered in ~20% of human cancers. ARID1A, a component of the SWI/SNF chromatin-remodeling complex, is the most frequently mutated epigenetic regulator in human cancers. Inactivation of the SWI/SNF complex is synthetically lethal with inhibition of EZH2 activity. EZH2 inhibitors are entering clinical trials for specific tumor types with SWI/SNF mutations. more...

Organism:: Homo sapiens

Type:: Genome binding/occupancy profiling by high throughput sequencing

Platform:: GPL18573
2 Samples

Download data: TXT

Series

Accession:: GSE110448

ID:: 200110448

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 2001278979.

Loss of ARID1A induces a stemness gene ALDH1A1 expression with histone acetylation in the malignant subtype of cholangiocarcinoma

(Submitter supplied) Genomic analyses have recently discovered the malignant subtype of human intrahepatic cholangiocarcinoma (ICC) characterized by frequent mutations of chromatin remodeling gene ARID1A, however, the biological and molecular functions still remain obscure. We here examined the clinical and biological significances of ARID1A deficiency in human ICC. Immunohistochemical analysis demonstrated that loss of ARID1A was an independent prognostic factor for overall survival of ICC patients (P = 0.023). more...

Organism:: Homo sapiens

Type:: Expression profiling by array

Platform:: GPL570
4 Samples

Download data: CEL

Series

Accession:: GSE127897

ID:: 200127897

Select item 20013427010.

ARID1A and the BAF complex are determinants of breast cancer treatment response [ATAC-Seq]

(Submitter supplied) Global CRISPR screens provide an unparalleled, longer-term experimental approach for the identification of essential genes in drug resistance. We used an ~18,000 gene deletion screen to discover ARID1A and other BAF complex components as the most critical factors required for response to two classes of Estrogen Receptor (ER) antagonists, namely ER degraders and Selective Estrogen Receptor Modulators (SERMs). more...

Organism:: Homo sapiens

Type:: Genome binding/occupancy profiling by high throughput sequencing

Platform:: GPL20301
24 Samples

Download data: BED

Series

Accession:: GSE134270

ID:: 200134270

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 20012328611.

ARID1A and the BAF complex are determinants of breast cancer treatment response

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:: Homo sapiens

Type:: Other; Genome binding/occupancy profiling by high throughput sequencing; Expression profiling by high throughput sequencing

Platform:: GPL20301
422 Samples

Download data: BED

Series

Accession:: GSE123286

ID:: 200123286

PubMed Full text in PMC Similar studies

Select item 20012328512.

ARID1A and the BAF complex are determinants of breast cancer treatment response [RNA-seq]

(Submitter supplied) Global CRISPR screens provide an unparalleled, longer-term experimental approach for the identification of essential genes in drug resistance. We used an ~18,000 gene deletion screen to discover ARID1A and other BAF complex components as the most critical factors required for response to two classes of Estrogen Receptor (ER) antagonists, namely ER degraders and Selective Estrogen Receptor Modulators (SERMs). more...

Organism:: Homo sapiens

Type:: Expression profiling by high throughput sequencing

Platform:: GPL20301
96 Samples

Download data: TSV

Series

Accession:: GSE123285

ID:: 200123285

PubMed Full text in PMC Similar studies Analyze with GEO2R SRA Run Selector

Select item 20012328413.

ARID1A and the BAF complex are determinants of breast cancer treatment response [ChIP-seq]

(Submitter supplied) Global CRISPR screens provide an unparalleled, longer-term experimental approach for the identification of essential genes in drug resistance. We used an ~18,000 gene deletion screen to discover ARID1A and other BAF complex components as the most critical factors required for response to two classes of Estrogen Receptor (ER) antagonists, namely ER degraders and Selective Estrogen Receptor Modulators (SERMs). more...

Organism:: Homo sapiens

Type:: Genome binding/occupancy profiling by high throughput sequencing

Platform:: GPL20301
267 Samples

Download data: BED

Series

Accession:: GSE123284

ID:: 200123284

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 20012328314.

ARID1A and the BAF complex are determinants of breast cancer treatment response [CRISPR gRNA-seq]

(Submitter supplied) Global CRISPR screens provide an unparalleled, longer-term experimental approach for the identification of essential genes in drug resistance. We used an ~18,000 gene deletion screen to discover ARID1A and other BAF complex components as the most critical factors required for response to two classes of Estrogen Receptor (ER) antagonists, namely ER degraders and Selective Estrogen Receptor Modulators (SERMs). more...

Organism:: Homo sapiens

Type:: Other

Platform:: GPL20301
35 Samples

Download data: TSV

Series

Accession:: GSE123283

ID:: 200123283

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 20008440515.

ARID1A-mutated ovarian cancers depend on HDAC6 activity

(Submitter supplied) ARID1A, encoding a subunit of the SWI/SNF chromatin remodeling complex, is the most mutated epigenetic regulator in human cancers. ARID1A and TP53 mutations are typically mutually exclusive. Therapeutic approaches that correlate with ARID1A mutational status remain a challenge. Here, we show that HDAC6 activity is essential in ARID1A-mutated ovarian cancers. Inhibition of HDAC6 activity using a clinically applicable small molecule inhibitor significantly improved the survival of mice bearing ARID1A-mutated ovarian tumors. more...

Organism:: Homo sapiens

Type:: Expression profiling by high throughput sequencing

Platform:: GPL18573
5 Samples

Download data: TXT

Series

Accession:: GSE84405

ID:: 200084405

PubMed Full text in PMC Similar studies Analyze with GEO2R SRA Run Selector

Select item 20010666516.

Inactivation of ARID1A-SWI/SNF Complex Alters Chromatin Compactness at Enhancer Regions and Affects Transcription of Key Tumor Signaling Circuitry

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:: Mus musculus; Homo sapiens

Type:: Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing

Platforms:: GPL17021 GPL18573 GPL16791
116 Samples

Download data

Series

Accession:: GSE106665

ID:: 200106665

PubMed Full text in PMC Similar studies

Select item 20010666217.

Inactivation of ARID1A-SWI/SNF Complex Alters Chromatin Compactness at Enhancer Regions and Affects Transcription of Key Tumor Signaling Circuitry [RNA-Seq, mouse]

(Submitter supplied) Somatic mutations in ARID1A, a SWI/SNF chromatin remodeling gene, are prevalent in human malignancies linked to endometriosis. Through comprehensive chromatin immunoprecipitation sequencing and transposase-accessible chromatin sequencing, we identified chromatin binding regions for ARID1A/BRG1-containing SWI/SNF remodeling complexes, which were enriched at enhancers and corresponded to a euchromatin state. more...

Organism:: Mus musculus

Type:: Expression profiling by high throughput sequencing

Platform:: GPL17021
10 Samples

Download data: TXT

Series

Accession:: GSE106662

ID:: 200106662

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 20010666118.

Inactivation of ARID1A-SWI/SNF Complex Alters Chromatin Compactness at Enhancer Regions and Affects Transcription of Key Tumor Signaling Circuitry [RNA-Seq]

(Submitter supplied) Somatic mutations in ARID1A, a SWI/SNF chromatin remodeling gene, are prevalent in human malignancies linked to endometriosis. Through comprehensive chromatin immunoprecipitation sequencing and transposase-accessible chromatin sequencing, we identified chromatin binding regions for ARID1A/BRG1-containing SWI/SNF remodeling complexes, which were enriched at enhancers and corresponded to a euchromatin state. more...

Organism:: Homo sapiens

Type:: Expression profiling by high throughput sequencing

Platform:: GPL16791
16 Samples

Download data: TXT

Series

Accession:: GSE106661

ID:: 200106661

PubMed Full text in PMC Similar studies Analyze with GEO2R SRA Run Selector

Select item 20010666019.

Inactivation of ARID1A-SWI/SNF Complex Alters Chromatin Compactness at Enhancer Regions and Affects Transcription of Key Tumor Signaling Circuitry [ChIP-Seq]

(Submitter supplied) For ATAC-seq data processing, we used the ENCODE ATAC-seq pipeline (https://www.encodeproject.org/atac-seq/). In detail, for each sample, ATAC-seq reads were first checked for adaptor contamination. Then, adaptor trimmed reads were aligned to hg19 using Bowtie2 under paired-end mode with parameter “-X2000”, which permits 2000 bp for the maximum allowable insert size between two paired ends of each read. more...

Organism:: Homo sapiens

Type:: Genome binding/occupancy profiling by high throughput sequencing

Platform:: GPL18573
78 Samples

Download data: BEDGRAPH

Series

Accession:: GSE106660

ID:: 200106660

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 20010665820.

Inactivation of ARID1A-SWI/SNF Complex Alters Chromatin Compactness at Enhancer Regions and Affects Transcription of Key Tumor Signaling Circuitry [ATAC-Seq]

(Submitter supplied) Somatic mutations in ARID1A, a SWI/SNF chromatin remodeling gene, are prevalent in human malignancies linked to endometriosis. Through comprehensive chromatin immunoprecipitation sequencing and transposase-accessible chromatin sequencing, we identified chromatin binding regions for ARID1A/BRG1-containing SWI/SNF remodeling complexes, which were enriched at enhancers and corresponded to a euchromatin state. more...

Organism:: Homo sapiens

Type:: Genome binding/occupancy profiling by high throughput sequencing

Platform:: GPL18573
12 Samples

Download data: BEDGRAPH

Series

Accession:: GSE106658

ID:: 200106658

PubMed Full text in PMC Similar studies SRA Run Selector

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