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ChIP-seq based genome wide profiling of the histone mark H3K27ac and transcription factor Nuclear Factor 1 (NFI) in a differentiating murine brown preadipocyte cell line (IBA)

ABSTRACT: ChIP sequencing was used to generate genome-wide maps of the histone mark H3K27ac during in vitro differentiation of a murine brown preadipocyte cell line (IBA) at five different time points, in two biological replicates: Day 0 (confluence), 2h (post induction), Day 1, Day 2 and Day 4 (mature brown adipocytes). Additionally, transcription factor (TF) localisation maps of the Nuclear Factor 1 (NFI) were generated using ChIP sequencing at two time points: Day 0 and Day 4.

INSTRUMENT(S): NextSeq 550, Illumina HiSeq 2000

ORGANISM(S): Mus musculus

SUBMITTER: Rachana Pradhan

PROVIDER: E-MTAB-5159 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Dissecting the brown adipogenic regulatory network using integrative genomics.

Pradhan Rachana N RN Bues Johannes J JJ Gardeux Vincent V Schwalie Petra C PC Alpern Daniel D Chen Wanze W Russeil Julie J Raghav Sunil K SK Deplancke Bart B

Scientific reports 20170209

Brown adipocytes regulate energy expenditure via mitochondrial uncoupling, which makes them attractive therapeutic targets to tackle obesity. However, the regulatory mechanisms underlying brown adipogenesis are still poorly understood. To address this, we profiled the transcriptome and chromatin state during mouse brown fat cell differentiation, revealing extensive gene expression changes and chromatin remodeling, especially during the first day post-differentiation. To identify putatively causa ...[more]

PMID: 28181539

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mRNA-seq based gene expression profiling of differentiating murine brown preadipocytes (IBA)

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2017-10-14 | E-MTAB-5160 | biostudies-arrayexpress

Barcoded mRNA-seq of murine brown preadipocytes (IBA) upon transcriptomic perturbation

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Project description:Here we have characterized the transcriptional processes underlying the formation of human brown in white (i.e. brite) adipocytes using a genome-wide approach. We show that the browning process is associated with reprogramming of peroxisome proliferator-activated receptor γ (PPARγ) binding to form brite adipocyte-selective PPARγ super-enhancers that appear to play a key role in activation of brite adipocyte-selective genes. We identify the KLF11 gene based on its association with a PPARγ super-enhancer and show that KLF11 is a novel browning factor directly induced by rosiglitazone and required for the activation of brite adipocyte-selective gene program by rosiglitazone. Genome-wide profiling of Dnase I hypersenstive (DHS) sites, epigenomic marks, transcription factor and co-factor binding, and gene expression in hMADS white and brite adipocytes

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