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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
TranscriptomicsMolecular architecture of transcription factor hotspots in early adipogenesis
Here, we have used digital genomic footprinting to precisely define protein localization for several adipogenic transcription factors at a genome-wide level. In combination with ChIP-seq data, these analyses reveal novel molecular insight into the organization of transcription factors at hotpot regi...
ORGANISM(S): Mus musculus 
2014-05-08 | E-GEOD-57415 | biostudies-arrayexpress
TranscriptomicsMicroRNA identity and abundance in porcine skeletal muscles determined by deep sequencing
MicroRNAs (miRNA) are short single-stranded RNA molecules that regulate gene expression post-transcriptionally by binding to complementary sequences in the 3' untranslated region (3' UTR) of target mRNAs. MiRNAs participate in the regulation of myogenesis, and identification of the complete set of m...
ORGANISM(S): Sus scrofa 
2009-11-24 | E-GEOD-14584 | biostudies-arrayexpress
UnknownA scan for positively selected genes in the genomes of humans and chimpanzees.
Not available
S-EPMC1088278 | biostudies-literature
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
TranscriptomicsHepatic transcriptional profiling of mRNA and microRNA in pigs infected with Actinobacillus pleuropneumoniae
Actinobacillus pleuropneumoniae is a gram-negative bacterium that causes porcine pleuropneumonia, which is a widespread, highly contagious, and often fatal respiratory disease in swine. In this experiment pigs were inoculated with A. pleuropneumoniae serotype 5b. Liver samples from three non-inocula...
ORGANISM(S): Sus scrofa 
2014-09-01 | E-GEOD-32947 | biostudies-arrayexpress
ModelsMardinoglu2014 - Genome-scale metabolic model (HMR version 2.0) - human hepatocytes (iHepatocytes2322)
Mardinoglu2014 - Genome-scale metabolic model (HMR version 2.0) - human hepatocytes (iHepatocytes2322) This model is described in the article: Genome-scale metabolic modelling of hepatocytes reveals serine deficiency in patients with non-alcoholic fatty liver disease. Mardinog...
2005-01-01 | MODEL1402200003 | BioModels
GenomicsGenome-wide profiling of PPAR?:RXR and RNA polymerase II
Genome-wide profiling of PPAR?:RXR and RNA polymerase II reveals temporal activation of distinct metabolic pathways in RXR dimer composition during adipogenesis. Chromatin immunoprecipitation combined with deep sequencing was performed to generate genome-wide maps of peroxisome prolifelator-activat...
ORGANISM(S): Mus musculus 
2008-12-10 | E-GEOD-13511 | biostudies-arrayexpress
ModelsTymoshenko2015 - Genome scale metabolic model - ToxoNet1
Tymoshenko2015 - Genome scale metabolic model - ToxoNet1 This model is described in the article: Metabolic Needs and Capabilities of Toxoplasma gondii through Combined Computational and Experimental Analysis. Tymoshenko S, Oppenheim RD, Agren R, Nielsen J, Soldati-Favre D, H...
2015-07-07 | MODEL1504280000 | BioModels
ModelsCaspeta2012 - Genome-scale metabolic network of Pichia pastoris (iLC915)
Caspeta2012 - Genome-scale metabolic network of Pichia pastoris (iLC915) This model is described in the article: Genome-scale metabolic reconstructions of Pichia stipitis and Pichia pastoris and in silico evaluation of their potentials. Caspeta L, Shoaie S, Agren R, Nookaew ...
2015-07-30 | MODEL1507180065 | BioModels
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