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TranscriptomicsComplex patterns of accessibility discriminate sites of PcG repression, H4K16 acetylation and replication initiation
Full title: Complex patterns of genome accessibility discriminate sites of PcG repression, H4K16 acetylation and replication initiation Histone modifications have been proposed to regulate gene expression in part by modulating DNA accessibility and higher-order chromatin structure. However, there i...
ORGANISM(S): Drosophila melanogaster 
2010-03-16 | E-GEOD-17697 | biostudies-arrayexpress
GenomicsDevelopmental dynamics of DNA accessibility during flower development [DNaseI-Seq]
Development of eukaryotic organisms is controlled by transcription factors that trigger specific and global changes in gene expression programmes. In plants, MADS-domain transcription factors act as master regulators of developmental switches and organ specification. However, the mechanisms by which...
ORGANISM(S): Arabidopsis thaliana 
2014-02-03 | E-GEOD-46894 | biostudies-arrayexpress
GenomicsDNA accessibility profile of three C. elegans tissues during development
We show there is minimal genome-wide chromatin rearrangements (as measured by DNA accessibility) during tissue differentiation in C. elegans transgenic expression of E. coli DAM (DNA Adenine Methyltransferase) from tissue-specific promoters followed by mapping of methylated sites using a procedure t...
ORGANISM(S): Caenorhabditis elegans 
2011-04-16 | E-GEOD-23042 | biostudies-arrayexpress
TranscriptomicsFunctional DNA methylation is accompanied by chromatin accessibility [methylation]
Analysis of nucleosome positioning and chromatin state by using CpG methyltransferase M.SssI to methylate nuclei. Unmethylated regions that gain methylation (low to high beta value) are known to be accessible and nucleosome depleted. Method used to study changes after epigenetic drug treatments iden...
ORGANISM(S): Homo sapiens 
2013-03-08 | E-GEOD-43851 | biostudies-arrayexpress
TranscriptomicsDNase02
In eukaryotes, DNA is packaged into chromatin. It has become evident that the degree of packaging is not uniform along the genome. More compact chromatin greatly hinder access of transcription factors or other DNA-binding or modifying proteins, and DNA accessibility is an important yet poorly studie...
ORGANISM(S): Arabidopsis thaliana 
2013-05-01 | E-TABM-1219 | biostudies-arrayexpress
GenomicsIdentification of chromatin accessibility domains in EMT and breast cancer stem cell formation.
Epithelial-mesenchymal transition (EMT), the process whereby cells gain migratory and invasive properties characteristic of mesenchymal cells, plays a central role in embryogenesis and wound healing in a wide range of tissues. However, EMT has also been linked to the formation of cancer stem cells (...
ORGANISM(S): Homo sapiens 
2016-03-10 | E-GEOD-71023 | biostudies-arrayexpress
TranscriptomicsFunctional DNA methylation is accompanied by chromatin accessibility [gene expression]
Analysis of nucleosome positioning and chromatin state by using CpG methyltransferase M.SssI to methylate nuclei. Unmethylated regions that gain methylation (low to high beta value) are known to be accessible and nucleosome depleted. Method used to study changes after epigenetic drug treatments iden...
ORGANISM(S): Homo sapiens 
2013-03-08 | E-GEOD-43852 | biostudies-arrayexpress
ProteomicsID3 Deficiency Alters Chromatin Accessibility at DSB Sites and Enhances Vulnerability to HDAC Inhibition
The inhibitor of DNA-binding 3 (ID3) plays a crucial role in DNA double-strand break (DSB) repair. We previously reported that ID3 loss reduced chromatin accessibility at DNA repair gene promoters, yet its exact role in DNA repair via chromatin regulation remained elusive. Using the AID-DIvA cell sy...
ORGANISM(S): Homo sapiens (Human) 
2026-05-25 | PXD069605 | Pride
Id3 Chromatin accessibility Hdac Dsb Inhibition 
TranscriptomicsChromatin Accessibility Reveals Insight into Androgen Receptor Activation and Transcriptional Specificity
Using DNase-seq, mRNA-seq and publicly available ChIP-seq data sets, we examined the role of chromatin accessibility (DNase-seq) in androgen receptor binding to the genome (ChIP-seq) and AR-mediated transcriptional changes (mRNA-seq). Our data reveals genome-wide changes in chromatin structure that ...
ORGANISM(S): Homo sapiens 
2012-08-14 | E-GEOD-34780 | biostudies-arrayexpress
GenomicsTranscription Restart Establishes Chromatin Accessibility after DNA Replication
Transcription Restart Establishes Chromatin Accessibility after DNA Replication
PRJNA528325 | ENA
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