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TranscriptomicsHuman cells contain natural double-stranded RNAs with potential regulatory capacity
Although recent evidence suggests that overlapping sense/antisense transcription is a common feature in higher eukaryotes, the possibility that overlapping transcripts could interact to each other and bear a specific biological function has not been explored. Here we show that a plethora of sense/an...
ORGANISM(S): Homo sapiens 
2014-12-14 | E-GEOD-62930 | biostudies-arrayexpress
TranscriptomicsDissecting the retinoid-induced differentiation of F9 embryonal stem cells by integrative genomics [mRNA profiling]
Retinoic acid (RA) triggers physiological processes by activating heterodimeric transcription factors comprising retinoic acid (RARa,b,g) and retinoid X (RXRa,b,g) receptors. How a single signal induces highly complex temporally controlled networks that ultimately orchestrate physiological processes...
ORGANISM(S): Mus musculus 
2011-10-10 | E-GEOD-30537 | biostudies-arrayexpress
GenomicsDissecting the retinoid-induced differentiation of F9 embryonal stem cells by integrative genomics [ChIP-seq]
Retinoic acid (RA) triggers physiological processes by activating heterodimeric transcription factors comprising retinoic acid (RARa,b,g) and retinoid X (RXRa,b,g) receptors. How a single signal induces highly complex temporally controlled networks that ultimately orchestrate physiological processes...
ORGANISM(S): Mus musculus 
2011-10-11 | E-GEOD-30538 | biostudies-arrayexpress
GenomicsSingle-tube Linear DNA amplification (LinDA) for robust ChIP-seq
Genome-wide profiling of transcription factors based on massive parallel sequencing of immunoprecipitated chromatin (ChIP-seq) requires nanogram amounts of DNA. Here we describe a high-fidelity, single-tube linear DNA amplification method (LinDA) for ChIP-seq and reChIP-seq with picogram DNA amounts...
ORGANISM(S): Homo sapiens 
2011-10-11 | E-GEOD-32332 | biostudies-arrayexpress
GenomicsMethylation specifies distinct estrogen-induced binding site repertoires of CBP to chromatin (ChIP-Seq)
Multiple signaling pathways ultimately modulate the epigenetic information embedded in the chromatin of gene promoters by recruiting epigenetic enzymes. We found that, in estrogen-regulated gene programming, the acetyltransferase CREB-binding protein (CBP) is specifically and exclusively methylated ...
ORGANISM(S): Homo sapiens 
2011-10-06 | E-GEOD-32349 | biostudies-arrayexpress
TranscriptomicsSenescence secreted factors activate Myc and sensitize pre-transformed cells to TRAIL-induced apoptosis
Senescent cells secrete a plethora of factors with potent paracrine signaling capacity. Strikingly, senescence, which acts as a defense against cell transformation, exerts pro-tumorigenic activities through its secretome by promoting numerous tumor-specific features, such as cellular proliferation, ...
ORGANISM(S): Homo sapiens 
2014-01-15 | E-GEOD-49944 | biostudies-arrayexpress
TranscriptomicsMethylation specifies distinct estrogen-induced binding site repertoires of CBP to chromatin (mRNA)
Multiple signaling pathways ultimately modulate the epigenetic information embedded in the chromatin of gene promoters by recruiting epigenetic enzymes. We found that, in estrogen-regulated gene programming, the acetyltransferase CREB-binding protein (CBP) is specifically and exclusively methylated ...
ORGANISM(S): Homo sapiens 
2011-10-06 | E-GEOD-32348 | biostudies-arrayexpress
GenomicsActivation of the Integrated Stress Response by a Jumonji Histone Demethylase Inhibitor Induces Pro-Apoptotic Metabolic Reprogramming in Multiple Myeloma
Regulation of gene expression by chromatin modification through methylation of histone lysine residues is a dynamic, reversible process that when deregulated is associated with cancer development. In multiple myeloma, combined inhibition of the histone demethylases JARID1B, UTX and JmjD3 by the smal...
ORGANISM(S): Homo sapiens 
2015-08-21 | E-GEOD-60626 | biostudies-arrayexpress
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