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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
TranscriptomicsGenome-Wide Chromatin Landscape Transitions Identify Novel Pathways in Early Commitment to Osteoblast Differentiation (microarray)
DHS enahncers identify novel pathways in OB differentiation We examined gene expression and compared to DHS on promoters and enhancers during OB differentiation
ORGANISM(S): Homo sapiens 
2016-02-20 | E-GEOD-75230 | biostudies-arrayexpress
GenomicsGenome-Wide Chromatin Landscape Transitions Identify Novel Pathways in Early Commitment to Osteoblast Differentiation (Dnase-Seq)
DHS enahncers to identify novel pathways in OB differentiation We examined DHS identified enhancers and promoters during OB differentiation
ORGANISM(S): Homo sapiens 
2016-02-20 | E-GEOD-75231 | biostudies-arrayexpress
TranscriptomicsChromosome conformation capture-on-chip of glucocorticoid receptor-responsive loci in mouse cells
The spatial organization of genes in the interphase nucleus plays an important role in establishment and regulation of gene expression. Contradicting results have been reported to date, with little consensus about the dynamics of nuclear organization and the features of the contact loci. In this s...
ORGANISM(S): Mus musculus 
2011-04-21 | E-GEOD-27115 | biostudies-arrayexpress
GenomicsMultiple Overlapping Mammalian Chromatin Remodeling Systems Collaborate Genome-wide at Dynamic Chromatin Transitions (ChIP-Seq)
ATP-dependent chromatin remodeling is an essential process required for the dynamic organization of chromatin structure. Here we describe the genome-wide location and activity of three remodeler proteins with diverse physiological functions in the mouse genome: Brg1, Chd4, and Snf2h. The localizatio...
ORGANISM(S): Mus musculus 
2013-12-24 | E-GEOD-53583 | biostudies-arrayexpress
GenomicsMultiple Overlapping Mammalian Chromatin Remodeling Systems Collaborate Genome-wide at Dynamic Chromatin Transitions (Dnase-Seq)
ATP-dependent chromatin remodeling is an essential process required for the dynamic organization of chromatin structure. Here we describe the genome-wide location and activity of three remodeler proteins with diverse physiological functions in the mouse genome: Brg1, Chd4, and Snf2h. The localizatio...
ORGANISM(S): Mus musculus 
2013-12-24 | E-GEOD-53584 | biostudies-arrayexpress
GenomicsGR and Pol II interactions with regulatory elements in response to ultradian (pulsed) hormone stimulation [ChIP-seq]
We report changes in GR and Pol II binding profiles genome-wide upon treatment with corticosterone (Cort) for 20 minutes, treatment with Cort for 20 minutes followed by hormone withdrawal for 40 minutes, 60 minutes continuous stimulation with Cort, and 60 minutes continuous stimulation with Dexamet...
ORGANISM(S): Mus musculus 
2015-02-12 | E-GEOD-61234 | biostudies-arrayexpress
GenomicsRapid Genome-Scale Mapping of Chromatin Accessibility in Tissue
Here we introduce a novel technique that specifically identifies Tissue Accessible Chromatin (TACh). The TACh method uses pulverized frozen tissue as starting material and employs one of the two robust endonucleases, Benzonase or Cyansase, which are fully active under a range of stringent conditions...
ORGANISM(S): Mus musculus 
2012-08-10 | E-GEOD-39982 | 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
TranscriptomicsA mouse model of endemic Burkitt translocations reveals the long-range boundaries of Ig-mediated oncogene deregulation
Igh/Myc translocations underlie both sporadic Burkitt lymphoma (BL) and the endemic clinical form affecting African children infected with malaria. However, while sporadic translocations decapitate Myc from 5' proximal regulatory elements, most endemic events occur hundreds of kilobases away from My...
ORGANISM(S): Mus musculus 
2013-07-04 | E-GEOD-48514 | biostudies-arrayexpress
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