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Differential open chromatin profile and transcriptomic signature define depot-specific human subcutaneous preadipocytes [ATAC-Seq]

ABSTRACT: Differential open chromatin profile and transcriptomic signature define depot-specific human subcutaneous preadipocytes [ATAC-Seq]

PROVIDER: PRJNA485819 | ENA |

REPOSITORIES: ENA

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Differential open chromatin profile and transcriptomic signature define depot-specific human subcutaneous preadipocytes

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Differential open chromatin profile and transcriptomic signature define depot-specific human subcutaneous preadipocytes [RNA-seq]

Project description:RNA-seq experiments revealed an A-fat and GF-fat selective gene expression signature, with 126 genes up-regulated in abdominal preadipocytes and 90 genes up-regulated in GF cells. Assay for transposase-accessible chromatin with high throughput sequencing (ATAC-seq) identified almost 10-times more A-specific chromatin-accessible regions. Using a combined analysis of ATAC-seq and global gene expression data, we identified 74 of the 126 abdominal-specific genes (59%) with A-specific accessible chromatin sites within 200kb of the transcription start site (TSS). Interestingly, only 14 of the 90 GF-specific genes (15%) had GF-specific accessible chromatin sites within 200kb of the corresponding TSS, whereas 25 of them (28%) had abdominal-specific accessible chromatin sites.

2018-08-14 | GSE118497 | GEO

Differential open chromatin profile and transcriptomic signature define depot-specific human subcutaneous preadipocytes [ATAC-Seq]

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Differential open chromatin profile and transcriptomic signature define depot-specific human subcutaneous preadipocytes: primary outcomes.

Project description: Not available

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Dicer knockout mouse subcutaneous preadipocytes

2012-03-31 | GSE24683 | GEO

Differential open chromatin profile and transcriptomic signature define depot-specific human subcutaneous preadipocytes

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

2018-08-14 | GSE118500 | GEO

Dicer knockout mouse subcutaneous preadipocytes

Project description:Dicer is required for miRNA processing and RNA interference. Here we knocked out Dicer in SV40 T antigen immortalized subcutaneous preadipocytes isolated from Dicer flox mice by transducing these cells with adenoviruses harboring Cre recombinase. Control cells were transduced with adenovirus harboring GFP. We used microarrays to detail the gene expression profile of Dicer knockout preadipocytes. Four days after adenovirus infection, cells were harvested for RNA isolation and hybridization on Affymetrix microarrays. At this point, Dicer knockout was confirmed by several methods.

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Human primary subcutaneous preadipocytes treated with glucocorticoids prior to the initiation of differentiation

Project description:Full title: Expression data from human primary subcutaneous preadipocytes treated with glucocorticoids prior to the initiation of differentiation. Preadipocytes are continuously exposed to glucocorticoids in situ due to both steroid present in the circulatory system as well as adipose tissue specific 11βHSD1 activity. While the effects of glucocorticoids during differentiation are well studied, the effect of exposure of preadipocytes to glucocorticoids prior to differentiation is unknown. We therefore treated confluent human primary preadipocytes drived from subcutaneous adipose tissue with the synthetic glucocorticoid dexamethasone for 48 hours prior to the initiation of differentiation and assessed what effect this had on their subsequent potential to differentiate. We found that pretreatment with glucocorticoids had a priming effect and resulted in increased differentiation of these preadipocytes. Furthermore, this treatment was additive to the effects of glucocorticoids during the initial phase of adipogenesis. Microarray analysis performed subsequent to the pretreatment with glucocorticoids (at the time point at which preadipocytes would have been induced to differentiate) identified glucocorticoid-responsive, candidate genes whose altered expression could mediate these effects. keywords: glucocorticoids, glucocorticoid receptor, preadipocytes, adipogenesis, human primary preadipocytes, subcutaneous, adipose tissue

2009-12-10 | GSE19393 | GEO

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