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TranscriptomicsiRNA-seq: Computational method for genome wide assessment of acute transcriptional regulation from total RNA-seq data
RNA-seq is a sensitive and accurate technique to compare steady state levels of RNA between different cellular states. However, as it does not provide an account of transcriptional activity per se, other technologies are needed to more precisely determine acute transcriptional responses. Here, we ha...
ORGANISM(S): Homo sapiens 
2015-02-04 | E-GEOD-60462 | biostudies-arrayexpress
TranscriptomicsTranscription profiling of mouse Apoe knockouts treated with SRM2975 and C57Bl/6 mice treated with exhaust particles reveals Serum amyloid and serum amyloid P are not induced in response to diesel exhaust particles or carbon black
W evaluated an experimental particle exposure model, including markers of the acute phase system assessed as the hepatic mRNA expression of Sap, the murine homologue of CRP, and Saa1 and Saa3. Experiment Overall Design: 12-13 weeks old Apoe knockout mice (C57BL/6-Apoe tm1) mice were injected intrape...
ORGANISM(S): Mus musculus 
2009-05-02 | E-GEOD-11346 | biostudies-arrayexpress
GenomicsExtensive Chromatin Remodeling and Establishment of Transcription Factor 'Hotspots' during Early Adipogenesis
Adipogenesis is tightly controlled by a complex network of transcription factors acting at different stages of differentiation. Peroxisome proliferator-activated receptor gamma (PPAR gamma) and CCAAT/enhancer binding protein (C/EBP) family members are key regulators of this process. We have employ...
ORGANISM(S): Mus musculus 
2011-03-22 | E-GEOD-27826 | biostudies-arrayexpress
TranscriptomicsTranscription factor cooperativity in early adipogenic hotspots and super-enhancers
Here we have used a combination of advanced proteomics and genomics approaches to investigate the extent and mechanisms of transcription factor cross-talk at genomic hotspots. We identify ~12,000 transcription factor hotspots in the early phase of adipogenesis, and we find evidence of both simultane...
ORGANISM(S): Mus musculus 
2014-04-17 | E-GEOD-56872 | biostudies-arrayexpress
GenomicsBrowning of human adipocytes requires KLF11 and reprogramming of PPARγ super-enhancers
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 b...
ORGANISM(S): Homo sapiens 
2014-12-12 | E-GEOD-59703 | biostudies-arrayexpress
TranscriptomicsThe acute cold response of brown adipose tissue analyzed by RNA-seq
We applied RNA sequencing (RNA-seq) to map the global changes in gene expression of interscapular brown adipose tissue (iBAT) of mice subjected to acute cold exposure for 3 days. Here we find extensive changes in the iBAT transcriptome in response to cold with a prominent induction of genes associat...
ORGANISM(S): Mus musculus 
2015-11-25 | E-GEOD-70437 | biostudies-arrayexpress
GenomicsAcute TNF-induced repression of cell identity genes is mediated by NFkB-directed redistribution of cofactors from super-enhancers
The proinflammatory cytokine tumor necrosis factor (TNF) plays a central role in low-grade adipose tissue inflammation and development of insulin resistance during obesity. In this context, nuclear factor kappa-light-chain-enhancer of activated B cells (NFkB), is directly involved and required for t...
ORGANISM(S): Homo sapiens 
2015-06-17 | E-GEOD-64233 | biostudies-arrayexpress
GenomicsGenome-Wide Profiling of Peroxisome Proliferator-Activated Receptor M-NM-3 in Primary Epididymal, Inguinal, and Brown Adipocytes Reveals Depot-Selective Binding Correlated with Gene Expression
Here we have employed chromatin immunoprecipitation combined with deep sequencing to map and compare PPARM-NM-3 binding in in vitro differentiated primary mouse adipocytes isolated from epididymal, inguinal, and brown adipose tissues. While these PPARM-NM-3 binding profiles are overall similar, the...
ORGANISM(S): Mus musculus 
2012-10-11 | E-GEOD-41481 | biostudies-arrayexpress
UnknownFasting-sensitive SUMO-switch on Prox1 controls hepatic cholesterol metabolism
Not available
S-SCDT-10_15252-EMBR_202255981 | biostudies-other
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