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Effect of SWI/SNF inhibition on gene expression in hormone-producing cells [RNA-seq]

ABSTRACT: To test the functional dependency of SF-1-dependent gene expression on SWI/SNF catalytic activity, we treated two human steroidogenic adrenocortical carcinoma (ACC) cell lines H295R and CU-ACC1 with 1 μM of SWI/SNF inhibitor BRM014 or equal volume of DMSO for 72 hours and performed RNA-seq. SWI/SNF inhibition strongly reduced the expression of steroidogenic genes targeted by the transcription factor SF-1, as well SF-1 (NR5A1) and β-catenin (CTNNB1) themselves.

ORGANISM(S): Homo sapiens

PROVIDER: GSE261006 | GEO | 2025/07/21

REPOSITORIES: GEO

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Chromatin profiling following SWI/SNF inhibition in H295R or HEK 293T cells [ChIP-seq]

Project description:To assess the genome-wide effect of acute SWI/SNF inhibition on SF-1/β-catenin chromatin binding, we treated H295R or HEK 293T cells with 1 µM of SWI/SNF inhibitor BRM014 or DMSO vehicle control for 1 hour and performed ChIP-seq. Pronounced loss of chromatin occupancy was observed for SF-1 and β-catenin at enhancer sites bound by ARID1A-containing cBAF complexes.

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DNA accessibility sites requiring SWI/SNF or β-catenin activity [ATAC-seq]

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β-catenin functions as a molecular adapter for disordered cBAF interactions

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2025-07-11 | PXD063603 | Pride

Genome-wide SF-1 (NR5A1) binding sites in NCI-H295R cells

Project description:The nuclear receptor steroidogenic factor-1 (SF-1, NR5A1) is a key regulator of adrenal and gonadal biology. We aimed to identify a novel subset of SF-1 target genes in the adrenal by performing ChIP-on-chip in NCI-H295R human adrenocortical cells using promoter tiling arrays. Analysis of ChIP-on-chip experiments with CisGenome identified 738 SF-1-binding regions that met criteria of an MA score more than 3.5 mean ± S.D. and a false discovery rate of <5%. Subsequent analysis focused on those regions that were located between 10 kb upstream and 3 kb downstream of the TSS of known genes, in keeping with the design of the Human Promoter 1.0R arrays. Using this approach, binding regions were annotated to 445 gene loci. The supplementary bed file contains all 946 SF-1 binding sites identified by analysis with CisGenome using standard settings (MA>3.0)

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Expression data from H295R cells in basal conditions/overexpressing SF-1

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2013-08-01 | GSE43032 | GEO

Expression data from H295R cells in basal conditions/overexpressing SF-1

Project description:SF-1 is a nuclear receptor transcription factor playing a key role in adrenogonadal development and in adrenocortical tumorigenesis when overexpressed. We studied gene expression profiles using Affymetrix microarrays in the H295R/TR SF-1 adrenocortical cancer cell line, where SF-1 expression can be increased in a doxycycline-dependent manner (Mol. Endocrinol. 21: 2968–2987, 2007) H295R/TR SF-1 cells were cultured either in basal conditions or with doxycycline (Dox) added to the culture medium for 72 hours. RNA was extracted and hybridized to HG-U133 Plus 2.0 Affymetrix microarrays.

2013-08-01 | E-GEOD-43032 | biostudies-arrayexpress

Expression data from H295R cells where NRSF/REST or SF-1 were knocked down

Project description:SF-1 is a nuclear receptor transcription factor playing a key role in adrenogonadal development and in adrenocortical tumorigenesis when overexpressed. NRSF/REST is a transcriptional repressor that represses expression of neuronal genes in non-neural tissues. Some data suggest that SF-1 and NRSF/REST can functionally interact in adrenocortical cancer cells. We studied gene expression profiles using Affymetrix microarrays in the H295R/TR SF-1 adrenocortical cancer cell line. In this cell line, SF-1 expression can be increased in a doxycycline-dependent manner (Mol. Endocrinol. 21: 2968–2987, 2007). The effects of a control siRNA and sRNAs specific for SF-1 and for NRSF/REST (in basal or increased SF-1 expression conditions) on gene expression were measured. In H295R/TR SF-1 cells SF-1 and NRSF/REST (in conditions of basal and increased SF-1 dosage) expression were knocked down by Amaxa nucleofection. RNA was extracted and hybridized to Human Gene 1.0 ST Affymetrix microarrays.

2013-08-01 | E-GEOD-43033 | biostudies-arrayexpress

Expression data from H295R cells where NRSF/REST or SF-1 were knocked down

Project description:SF-1 is a nuclear receptor transcription factor playing a key role in adrenogonadal development and in adrenocortical tumorigenesis when overexpressed. NRSF/REST is a transcriptional repressor that represses expression of neuronal genes in non-neural tissues. Some data suggest that SF-1 and NRSF/REST can functionally interact in adrenocortical cancer cells. We studied gene expression profiles using Affymetrix microarrays in the H295R/TR SF-1 adrenocortical cancer cell line. In this cell line, SF-1 expression can be increased in a doxycycline-dependent manner (Mol. Endocrinol. 21: 2968–2987, 2007). The effects of a control siRNA and sRNAs specific for SF-1 and for NRSF/REST (in basal or increased SF-1 expression conditions) on gene expression were measured.

2013-08-01 | GSE43033 | GEO

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