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Unknown,Transcriptomics,Genomics,Proteomics

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NRSF/REST knockdown, and SF-1 overexpression and knockdown

ABSTRACT: This SuperSeries is composed of the SubSeries listed below. Refer to individual Series

ORGANISM(S): Homo sapiens

SUBMITTER: Enzo LALLI

PROVIDER: E-GEOD-43035 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Integrative analysis of SF-1 transcription factor dosage impact on genome-wide binding and gene expression regulation.

Doghman Mabrouka M Figueiredo Bonald C BC Volante Marco M Papotti Mauro M Lalli Enzo E

Nucleic acids research 20130801 19

Steroidogenic Factor-1 (SF-1) is a nuclear receptor that has a pivotal role in the development of adrenal glands and gonads and in the control of steroid hormone production, being also implicated in the pathogenesis of adrenocortical tumors. We have analyzed the mechanisms how SF-1 controls gene expression in adrenocortical cells and showed that it regulates different categories of genes according to its dosage. Significant correlations exist between the localization of SF-1-binding sites in chr ...[more]

PMID: 23907384

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

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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

Identification of SF-1 genomic binding sites in conditions of basal and increased dosage in the H295R adrenocortical tumor cell line

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2013-08-01 | E-GEOD-44220 | biostudies-arrayexpress

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2013-10-01 | E-GEOD-45417 | biostudies-arrayexpress

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Project description:This SuperSeries is composed of the SubSeries listed below. Refer to individual Series

2013-08-01 | E-GEOD-44224 | biostudies-arrayexpress

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2014-04-09 | E-GEOD-55604 | biostudies-arrayexpress

Polysomes from DENR knockdown cells

Project description:The aim was to identify transcripts that are poorly translated upon knockdown of DENR. Lysates from control (GFP) and DENR knockdown S2 cells were run on polysome gradients. RNA from the (80S peak + polysome peaks) was isolated and analyzed by microarrays. In parallel, total RNA from the cells was also profiled as a normalization control and profiled. The 'translation score' of translated mRNA to total RNA was then calculated for control and DENR knockdown cells. Two biological replicates for DENR knockdown and GFP knockdown were performed. For each sample, (80S+polysomes) and total RNA were profiled, leading to 8 samples in total.

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