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GenomicsSystematic and single cell analysis of Xenopus Piwi-interacting RNAs and Xiwi
Various small RNA libraries from purified microtubules or Xiwi immunoprecipitates or total extract from X.tropicalis or X.laevis egg extract. Various small RNA libraries from single X.tropicalis eggs. Analysis of this series of files is described in the manuscript "Systematic and single cell ...
ORGANISM(S): Xenopus (Silurana) tropicalis 
2009-08-31 | E-GEOD-15556 | biostudies-arrayexpress
GenomicsThe Genomic Binding Sites of an Endogenous Non-Coding RNA
Long non-coding RNAs (lncRNAs) have important regulatory roles and can function at the level of chromatin. To determine where lncRNAs bind to chromatin, we developed CHART, a hybridization-based technique that specifically enriches endogenous RNAs along with their targets from reversibly-crosslinked...
ORGANISM(S): Drosophila melanogaster 
2011-12-07 | E-GEOD-28180 | biostudies-arrayexpress
TranscriptomicsGenome-wide identification of Polycomb-associated RNAs by RIP-seq
Large-scale analyses have revealed that 60-90% of the mammalian genome is transcriptionally active. Because <2% of sequences have protein-coding potential, why so much cellular energy is expended on RNA synthesis is a major question in the post-genomic era. The hypothesis that RNA may serve as recru...
ORGANISM(S): Mus musculus 
2010-12-22 | E-GEOD-17064 | biostudies-arrayexpress
GenomicsSpreading of X-chromosome inactivation via a hierarchy of defined Polycomb stations
Binding of Polycomb repressive complex 2 (PRC2) and chromatin composition of the inactive X (Xi) before, during and after X chromosome inactivation reveal that spreading is driven by a combination of Xi-specific strong and moderate Ezh2 sites. Sequence context of these sites shows a moderate enrichm...
ORGANISM(S): Mus musculus 
2012-11-01 | E-GEOD-36905 | biostudies-arrayexpress
TranscriptomicsSmall RNAs in differentiating mouse ES cells
RNA-interference (RNAi) refers to a growing class of gene silencing phenomena defined by a requirement for small RNAs of 20-32 nt and the action of the Argonaute (Ago) family of ribonucleases. We have previously identified developmentally regulated small RNAs, using Northern blot analysis, that are ...
ORGANISM(S): Mus musculus 
2013-05-18 | E-GEOD-21888 | biostudies-arrayexpress
TranscriptomicsExpression data of pre-stasis cultured HMEC
We have generated a large collection of normal human mammary epithelial cell strains from women aged 16 to 91 years, derived from primary tissues, to enable functional and molecular interrogation of aging. We demonstrate in finite-lifespan cultured and uncultured epithelial cells that aging is assoc...
ORGANISM(S): Homo sapiens 
2012-05-02 | E-GEOD-37485 | biostudies-arrayexpress
GenomicsGenome-wide maps of H3R2me2s in pro-B cells
We report the application of single-molecule-based sequencing technology for high-throughput profiling of H3R2me2s in mouse pro-B cells. We find that H3R2 symmetric dimethylation and H3K4 trimethylation colocalized throughout the genome of mouse pro-B cells. Examination of 2 different histone modifi...
ORGANISM(S): Mus musculus 
2012-02-02 | E-GEOD-35316 | biostudies-arrayexpress
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