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GenomicsActivation of the P-TEFb Complex by Lethal Prostate Cancer-Associated Enhancer RNAs [ChIP-Seq]
Castration resistant prostate cancer (CRPC) is a lethal disease1-4. Aberrant activation of the androgen receptor (AR) becomes a central mechanism contributing to the resistance of endocrine therapies2,3. Here we demonstrate that non-coding RNAs transcribed from the AR bound-enhancers RNAs (AR-eRNA...
ORGANISM(S): Homo sapiens 
2016-02-12 | E-GEOD-55031 | biostudies-arrayexpress
TranscriptomicsActivation of the P-TEFb Complex by Lethal Prostate Cancer-Associated Enhancer RNAs [RNA-Seq]
Castration resistant prostate cancer (CRPC) is a lethal disease1-4. Aberrant activation of the androgen receptor (AR) becomes a central mechanism contributing to the resistance of endocrine therapies2,3. Here we demonstrate that non-coding RNAs transcribed from the AR bound-enhancers RNAs (AR-eRNA...
ORGANISM(S): Homo sapiens 
2016-02-12 | E-GEOD-55030 | biostudies-arrayexpress
TranscriptomicsMeasure transcript integrity using RNA-seq data
Achieved biospecimens annotated with patient clinical characteristics are unique resources for translational research. However, RNA extracted from the achieved tissues is often degraded. RNA degradation can have a significant impact on the measure of transcript abundance that can lead to an increase...
ORGANISM(S): Homo sapiens 
2016-02-19 | E-GEOD-70285 | biostudies-arrayexpress
TranscriptomicsComparative transcriptomic analysis of prostate cancer and matched normal tissue using RNA-seq
We used RNA-seq to interrogate prostate cancer specific gene fusions, alternative splicings, somatic mutations and novel transcripts. We sequenced the transcriptome (polyA+) of 20 prostate cancer tumors and 10 matched normal tissues using Illumina GAII platform. Then we used bioinformatic approaches...
ORGANISM(S): Homo sapiens 
2011-05-02 | E-GEOD-22260 | biostudies-arrayexpress
GenomicsThe cistrome and transcriptome landscape of androgen receptor splice variants in castration-resistant prostate cancer cells
The spliced variant forms of androgen receptor (AR-Vs) have been identified recently in castration-resistant prostate cancer (CRPC) cell lines and clinical samples. Here we identified the cistrome and transcriptome landscape of AR-Vs in CRPC cell lines and determine the clinical significance of AR v...
ORGANISM(S): Homo sapiens 
2014-09-10 | E-GEOD-58478 | biostudies-arrayexpress
GenomicsDiscrete Functions of Rev-erba Couple Metabolism to the Clock [HTS]
Circadian and metabolic physiology are intricately intertwined, as illustrated by Rev-erb , a transcription factor (TF) that functions both as a core repressive component of the cell autonomous clock and as a regulator of metabolic genes. Here we show that Rev-erb modulates the clock and metabolis...
ORGANISM(S): Mus musculus 
2015-06-16 | E-GEOD-67962 | biostudies-arrayexpress
TranscriptomicsActivation of the P-TEFb Complex by Lethal Prostate Cancer-Associated Enhancer RNAs
This SuperSeries is composed of the SubSeries listed below. Refer to individual Series
ORGANISM(S): Homo sapiens 
2016-02-12 | E-GEOD-55032 | biostudies-arrayexpress
GenomicsActivation of P-TEFb by enhancer RNAs associated with lethal prostate cancer [ChIP-seq]
Castration resistant prostate cancer (CRPC) is a lethal disease. Sustained aberrant activation of androgen receptor (AR) becomes a central mechanism that contributes to endocrine therapy resistance. Here, we demonstrate that AR-bound enhancer RNAs (AR-eRNAs), including eRNA of the KLK3 (or PSA) ge...
ORGANISM(S): Homo sapiens 
2016-02-12 | E-GEOD-65066 | biostudies-arrayexpress
TranscriptomicsExpression data for Control and SMRT-Depleted MCF-7 Cells
Estrogens are an important regulator of breast cancer disease progression, and they function by binding the estrogen receptor--alpha (ER-alpha) to regulate changes in gene expression. ER-alpha is able to both activate and inhibit gene transcription in a gene-specific manner and do so by binding targ...
ORGANISM(S): Homo sapiens 
2014-06-21 | E-GEOD-57935 | biostudies-arrayexpress
GenomicsGenome-wide maps of H3K27me3 in WT (wild type) and Epi-df (mutant) rice
DNA methylation and histone H3 lysine 9 dimethylation (H3K9me2) are important epigenetic repression marks for silencing transposons in heterochromatin and regulating gene expression in plant development. However, the mechanistic relationship to other repressive marks, such as histone H3 lysine 27 tr...
ORGANISM(S): Oryza sativa 
2013-12-04 | E-GEOD-40674 | biostudies-arrayexpress
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