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TranscriptomicsMixture models and wavelet transforms reveal high confidence RNA-protein interaction sites in MOV10 PAR-CLIP data
The Photo-Activatable Ribonucleoside-enhanced CrossLinking and ImmunoPrecipitation (PAR-CLIP) method was recently developed for global identification of RNAs interacting with proteins. The strength of this versatile method results from induction of specific T to C transitions at sites of interaction...
ORGANISM(S): Homo sapiens 
2012-08-07 | E-GEOD-37524 | biostudies-arrayexpress
GenomicsPolycomb preferentially targets stalled promoters of coding and non-coding transcripts
The Polycomb group (PcG) and Trithorax group (TrxG) of proteins are required for stable and heritable maintenance of repressed and active gene expression states. Their antagonistic function on gene control, repression for PcG and activity for TrxG, is mediated by binding to chromatin and subsequent ...
ORGANISM(S): Drosophila melanogaster 
2010-12-21 | E-GEOD-24521 | biostudies-arrayexpress
TranscriptomicsRadicicol treatment of Drosophila cells
Drosophila S2 cells were treated with Heat-shock protein 90 (Hsp90) inhibitor radicicol for 15min, 30min and 1h. Poly(A) RNA was isolated and sequenced. Kinetics of transcriptional response to Hsp90 inhibition
ORGANISM(S): Drosophila melanogaster 
2012-05-14 | E-GEOD-35812 | biostudies-arrayexpress
GenomicsHeat-shock protein 90 globally targets paused promoters and regulates environment-induced gene expression
In this study we provide evidence that Hsp90 binds chromatin at specific sites close to several TSS in Drosophila S2 cell line. In addition of finding a preference for stalled promoter regions of annotated genes, we uncover many intergenic Hsp90 binding sites coinciding with non-annotated transcript...
ORGANISM(S): Drosophila melanogaster 
2012-05-14 | E-GEOD-31226 | biostudies-arrayexpress
TranscriptomicsA chromatin-modifying function of JNK during stem cell differentiation
Signaling mediates cellular responses to extracellular stimuli. The c-Jun NH2-terminal kinase (JNK) pathway exemplifies one sub-group of Mitogen-activated protein (MAP) kinases, which besides established functions in stress response, also contributes to developmental processes by an unknown mechanis...
ORGANISM(S): Mus musculus 
2011-12-18 | E-GEOD-25532 | biostudies-arrayexpress
GenomicsChromatin maps of the Drosophila melanogaster TrxG protein Ash1 and FSH
Trithorax group (TrxG) proteins counteract Polycomb silencing by an as yet uncharacterized mechanism. A well-known member of the TrxG is the histone methyltransferase Absent, Small, or Homeotic discs 1 (ASH1). In Drosophila ASH1 is needed for the maintenance of Hox gene expression throughout develop...
ORGANISM(S): Drosophila melanogaster 
2013-06-30 | E-GEOD-30820 | biostudies-arrayexpress
TranscriptomicsJAK/STAT coordinates cell proliferation during disc regeneration with Dilp8-mediated developmental delay in Drosophila melanogaster
Regeneration of fragmented Drosophila imaginal discs occurs in an epimorphic manner, involving local cell proliferation at the wound site. Following disc fragmentation, cells at the wound site activate a restoration program through wound healing, regenerative cell proliferation and repatterning of t...
ORGANISM(S): Drosophila melanogaster 
2015-04-10 | E-GEOD-54868 | biostudies-arrayexpress
GenomicsThe BET protein FSH functionally interacts with ASH1 to orchestrate global gene activity in Drosophila
Background: The question of how cells re-establish gene expression states after cell division is still poorly understood. Genetic and molecular analyses have indicated that Trithorax group (TrxG) proteins are critical for the long-term maintenance of active gene expression states in many organisms. ...
ORGANISM(S): Drosophila melanogaster 
2013-02-06 | E-GEOD-36450 | biostudies-arrayexpress
TranscriptomicsEffects of pharmacologic FSH inhibition on gene expression
see Super Series Summary We treated Drosophila S2-DRSC cells for 1, 2, 4 and 20 h with 10 µM JQ1 and compared their gene expression to DMSO-treated control cells (1 and 20 h).
ORGANISM(S): Drosophila melanogaster 
2013-02-06 | E-GEOD-36180 | biostudies-arrayexpress
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