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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
Genomicsc-Myc is a universal amplifier of gene expression
This SuperSeries is composed of the following subset Series: GSE37222: c-Myc is a universal amplifier of gene expression [Microarray] GSE37229: c-Myc is a universal amplifier of gene expression [ChIP-Seq] Refer to individual Series
ORGANISM(S): Mus musculus 
2012-09-27 | E-GEOD-37230 | biostudies-arrayexpress
Transcriptomicsc-Myc is a universal amplifier of gene expression [Microarray]
The c-Myc HLH-bZIP protein has been implicated in physiological or pathological growth, proliferation, apoptosis, metabolism and differentiation at the cellular, tissue or organismal levels via regulation of numerous target genes. In part due to the incomplete inventory and functional accounting of ...
ORGANISM(S): Mus musculus 
2012-09-27 | E-GEOD-37222 | biostudies-arrayexpress
Genomicsc-Myc is a universal amplifier of gene expression [ChIP-Seq]
The c-Myc HLH-bZIP protein has been implicated in physiological or pathological growth, proliferation, apoptosis, metabolism and differentiation at the cellular, tissue or organismal levels via regulation of numerous target genes. In part due to the incomplete inventory and functional accounting of ...
ORGANISM(S): Mus musculus 
2012-09-27 | E-GEOD-37229 | biostudies-arrayexpress
GenomicsH2A.Z Facilitates Access of Active and Repressive Complexes to Chromatin in Embryonic Stem Cell Self-renewal and Differentiation
Chromatin modifications have been implicated in the self-renewal and differentiation of embryonic stem cells (ESCs). However, the function of histone variant H2A.Z in ESCs remains unclear. We show that H2A.Z is highly enriched at promoters and enhancers and is required for both efficient self-renewa...
ORGANISM(S): Mus musculus 
2012-12-20 | E-GEOD-34483 | biostudies-arrayexpress
TranscriptomicsCD47 Inhibits Self-renewal and Reprogramming by Regulating c-Myc and Other Stem Cell Transcription Factors
Signaling through the thrombospondin-1 receptor CD47 broadly limits cell and tissue survival of stress, but the molecular mechanisms are incompletely understood. We now show that loss of CD47 permits sustained proliferation of primary murine endothelial cells and enables these cells to spontaneously...
ORGANISM(S): Mus musculus 
2013-07-10 | E-GEOD-43133 | biostudies-arrayexpress
TranscriptomicsRevisiting Global Gene Expression Analysis (RNA-Seq)
Gene expression analysis is a widely used and powerful method for investigating the transcriptional behavior of biological systems, for classifying cell states in disease and for many other purposes. Recent studies indicate that common assumptions currently embedded in experimental and analytical p...
ORGANISM(S): Homo sapiens 
2012-10-25 | E-GEOD-40783 | biostudies-arrayexpress
TranscriptomicsTranscription dependent dynamic supercoiling in Raji human B cells in vivo
Transcription has the capacity to modify mechanically DNA topology, DNA structure, and nucleosome arrangement. Resulting from ongoing transcription, these modifications in turn, may provide instant feedback to the transcription machinery. To substantiate the connection between transcription and DNA ...
ORGANISM(S): Homo sapiens 
2013-02-16 | E-GEOD-43751 | biostudies-arrayexpress
TranscriptomicsGenome-wide detection of DNase I hypersensitive sites in single cells and FFPE tissue samples
DNase I hypersensitive sites (DHSs) provide important information on the presence of transcriptional regulatory elements and the state of chromatin in mammalian cells1, 2, 3. Conventional DNase sequencing (DNase-seq) for genome-wide DHSs profiling is limited by the requirement of millions of cells4,...
ORGANISM(S): Mus musculus 
2015-11-25 | E-GEOD-61844 | biostudies-arrayexpress
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