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Transcriptomicschromatin associated RNAs
RNA has been suggested to play a major role in the regulation of higher-order structures of chromatin. This study investigated chromatin-associated RNA (caRNA) in Drosophila melanogaster by applying high-throughput sequencing to RNA molecules that co-fractionate with chromatin. Using a cell-free in ...
ORGANISM(S): Drosophila melanogaster 
2014-06-19 | E-MTAB-1237 | biostudies-arrayexpress
GenomicsTE-associated chromatin variation in mice livers
Chromatin accessibility is a hallmark of active regulatory function in the genome and variation of chromatin accessibility across individuals has been shown to contribute to complex traits and disease susceptibility. However, the mechanisms responsible for chromatin variation among different individ...
ORGANISM(S): Mus musculus 
2016-07-14 | E-GEOD-75770 | biostudies-arrayexpress
TranscriptomicsThe genomic landscape of cohesin-associated chromatin interactions
Cohesin is implicated in establishing tissue-specific DNA loops that target enhancers to promoters, and also localizes to sites bound by the insulator protein CTCF, which blocks enhancer-promoter communication. However, cohesin-associated interactions have not been characterized on a genome-wide sca...
ORGANISM(S): Mus musculus 
2013-05-22 | E-GEOD-42237 | biostudies-arrayexpress
ProteomicsCharacterization of chromatin associated RNA-binding proteins by SPACE
Chromatin processes such as DNA replication, transcription and RNA processing are mediated by intermolecular transactions among proteins, RNAs and the genome. Although DNA-protein and RNA-protein interactions have been studied extensively, reliable and efficient identification of chromatin-associate...
ORGANISM(S): Mus musculus (Mouse) 
2021-11-25 | PXD023903 | Pride
Proteomics Pluripotency Idr Chromatin Dazl Rbp 
ProteomicsMDM2 influenced chromatin-associated phospho-peptides in T47D cells
Employing a stable isotope labeling in cell culture analysis in T47D breast cancer cells (expressing mtp53 L194F), we uncovered several chromatin-associated DNA replication and repair factors as MDM2-regulated (by MDM2 inducible knock-down) phosphoproteins, including 53BP1
ORGANISM(S): Homo sapiens (Human) 
2025-07-14 | PXD061454 | Pride
Chromatin-associated Phospho-peptides Mdm2 53bp1 
TranscriptomicsHuman Aging-associated DNA Hypermethylation Occurs Preferentially at Bivalent Chromatin Domains
There is a growing realization that some aging-associated phenotypes/diseases have an epigenetic basis. Here we report the first genome-scale study of epigenomic dynamics during normal human aging. We identify aging-associated differentially methylated regions (aDMRs) in whole blood in a discovery c...
ORGANISM(S): Homo sapiens 
2010-06-24 | E-GEOD-20242 | biostudies-arrayexpress
TranscriptomicsHuman Aging-associated DNA Hypermethylation Occurs Preferentially at Bivalent Chromatin Domains
There is a growing realization that some aging-associated phenotypes/diseases have an epigenetic basis. Here we report the first genome-scale study of epigenomic dynamics during normal human aging. We identify aging-associated differentially methylated regions (aDMRs) in whole blood in a discovery c...
ORGANISM(S): Homo sapiens 
2010-06-24 | E-GEOD-20236 | biostudies-arrayexpress
ProteomicsChromatin-associated proteome S. cerevisiae
Chromatin-associated and RNA-dependent Chromatin-associated proteome from S. cerevisiae, obtained by a new method yChEFs(yeast Chromatin Enriched Fractions)
ORGANISM(S): Saccharomyces cerevisiae (Baker's yeast) 
2019-07-17 | PXD009264 | Pride
Processing Rna Chromatin S. cerevisiae 
Genomicschromatin associated RNAs
chromatin associated RNAs
PRJEB6562 | ENA
TranscriptomicsChromatin state signatures associated with tissue-specific gene expression and enhancer activity in the embryonic limb.
The regulatory elements that direct tissue-specific gene expression in the developing mammalian embryo remain largely unknown. Although chromatin profiling has proven to be a powerful method for mapping regulatory sequences in cultured cells, chromatin states characteristic of active developmental e...
ORGANISM(S): Mus musculus 
2012-03-16 | E-GEOD-30641 | biostudies-arrayexpress
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