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Combined analysis of oligonucleotide microarray data from transgenic and knockout mice identifies direct SREBP target genes

ABSTRACT: Combined analysis of oligonucleotide microarray data from transgenic and knockout mice identifies direct SREBP target genes

PROVIDER: PRJNA397142 | ENA |

REPOSITORIES: ENA

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Combined analysis of oligonucleotide microarray data from transgenic and knockout mice identifies direct SREBP target genes [MG_U74Cv2]

Project description:The synthesis of fatty acids and cholesterol is regulated by three membrane-bound transcription factors: sterol regulatory element-binding proteins (SREBP)-1a, -1c, and -2. Their function in liver has been characterized in transgenic mice that overexpress each SREBP isoform and in mice that lack all three nuclear SREBPs because of gene knockout of SREBP cleavage-activating protein (SCAP) required for nuclear localization of SREBPs. Here, we use oligonucleotide arrays hybridized with RNA from livers of three lines of mice (transgenic for SREBP-1a, transgenic for SREBP-2, and knockout for SCAP) to identify genes that are likely to be direct targets of SREBPs in liver. Application of stringent combinatorial criteria to the transgenic/knockout approach allows identification of genes whose activities are likely controlled directly by the SREBPs.

2017-08-05 | GSE102258 | GEO

Combined analysis of oligonucleotide microarray data from transgenic and knockout mice identifies direct SREBP target genes [MG_U74Bv2]

2017-08-05 | GSE102257 | GEO

Combined analysis of oligonucleotide microarray data from transgenic and knockout mice identifies direct SREBP target genes [MG_U74Av2]

2017-08-05 | GSE102256 | GEO

Combined analysis of oligonucleotide microarray data from transgenic and knockout mice identifies direct SREBP target genes.

Project description:The synthesis of fatty acids and cholesterol, the building blocks of membranes, is regulated by three membrane-bound transcription factors: sterol regulatory element-binding proteins (SREBP)-1a, -1c, and -2. Their function in liver has been characterized in transgenic mice that overexpress each SREBP isoform and in mice that lack all three nuclear SREBPs as a result of gene knockout of SREBP cleavage-activating protein (SCAP), a protein required for nuclear localization of SREBPs. Here, we use oligonucleotide arrays hybridized with RNA from livers of three lines of mice (transgenic for SREBP-1a, transgenic for SREBP-2, and knockout for SCAP) to identify genes that are likely to be direct targets of SREBPs in liver. A total of 1,003 genes showed statistically significant increased expression in livers of transgenic SREBP-1a mice, 505 increased in livers of transgenic SREBP-2 mice, and 343 showed decreased expression in Scap-/- livers. A subset of 33 genes met the stringent combinatorial criteria of induction in both SREBP transgenics and decreased expression in SCAP-deficient mice. Of these 33 genes, 13 were previously identified as direct targets of SREBP action. Of the remaining 20 genes, 13 encode enzymes or carrier proteins involved in cholesterol metabolism, 3 participate in fatty acid metabolism, and 4 have no known connection to lipid metabolism. Through application of stringent combinatorial criteria, the transgenic/knockout approach allows identification of genes whose activities are likely to be controlled directly by one family of transcription factors, in this case the SREBPs.

| S-EPMC218707 | biostudies-literature

Combined analysis of oligonucleotide microarray data from transgenic and knockout mice identifies direct SREBP target genes

Project description:This SuperSeries is composed of the SubSeries listed below.

2017-08-05 | GSE102259 | GEO

Legionella ITS oligonucleotide microarray

Project description:Legionella ITS oligonucleotide microarray

| PRJNA263045 | ENA

Next Generation Sequencing Facilitates Quantitative Analysis of SREBP transgenic and SREBP/Endotrophin Transcriptomes

Project description:Purpose: The goals of this study are to compare NGS-derived liver transcriptome profiling (RNA-seq). Methods: Alb-CRE/rosa26 rtTA/SREBP(S1a/Ctrl) vs Alb-CRE/rosa26 rtTA/SREBP/TRE-ETP (S1a/ETP) transgenic mice liver (RNAseq) Results: an increase in the levels of markers that are important for immune responses and inflammation and initiating and promoting tumour growth . In addition, genes abundantly expressed in neutrophils (Elane, Mpo, Ngp, Prtn3, Chil3, Cd177, S100a8, S100a9, and Lcn-2) were up-regulated Conclusions: Our data reveal that ETP can act as a “second hit” during NAFLD progression and can play an important role in the development of NASH and hepatocellular carcinoma (HCC).

2020-11-05 | GSE144653 | GEO

Next Generation Sequencing Facilitates Quantitative Analysis of SREBP transgenic and SREBP/Endotrophin Transcriptomes

Project description:Next Generation Sequencing Facilitates Quantitative Analysis of SREBP transgenic and SREBP/Endotrophin Transcriptomes

| PRJNA604499 | ENA

DNA binding preferences of fungal SREBP transcription regulators

Project description:Goal: We employed ChIP-seq to identify direct targets of regulation of the Candida albicans SREBP transcription regulator Cph2.

2018-11-05 | GSE118416 | GEO

Mus musculus

Project description:Combined analysis of oligonucleotide microarray data from transgenic and knockout mice identifies direct SREBP target genes [MG_U74Cv2]

| PRJNA397143 | ENA

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