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TranscriptomicsTemporal transcriptomics suggest that twin-peaking genes reset the clock
The mammalian suprachiasmatic nucleus (SCN) drives daily rhythmic behavior and physiology, yet a detailed understanding of its coordinated transcriptional programmes is lacking. To reveal the true nature of circadian variation in the mammalian SCN transcriptome we combined laser-capture microdissect...
ORGANISM(S): Mus musculus 
2015-11-03 | E-GEOD-72095 | biostudies-arrayexpress
TranscriptomicsThe DNMT1 associated lncRNA Dali is an epigenetic regulator of neural differentiation [1]
Many intergenic long noncoding RNA (lncRNA) loci regulate the expression of adjacent protein coding genes. Less clear is whether intergenic lncRNAs commonly regulate transcription by modulating chromatin at genomically distant loci. Here, we report both genomically local and distal RNA-dependent rol...
ORGANISM(S): Mus musculus 
2014-12-03 | E-GEOD-62031 | biostudies-arrayexpress
TranscriptomicsThe DNMT1 associated lncRNA Dali is an epigenetic regulator of neural differentiation [3]
Many intergenic long noncoding RNA (lncRNA) loci regulate the expression of adjacent protein coding genes. Less clear is whether intergenic lncRNAs commonly regulate transcription by modulating chromatin at genomically distant loci. Here, we report both genomically local and distal RNA-dependent rol...
ORGANISM(S): Mus musculus 
2014-12-03 | E-GEOD-62033 | biostudies-arrayexpress
TranscriptomicsThe DNMT1 associated lncRNA Dali is an epigenetic regulator of neural differentiation [2]
Many intergenic long noncoding RNA (lncRNA) loci regulate the expression of adjacent protein coding genes. Less clear is whether intergenic lncRNAs commonly regulate transcription by modulating chromatin at genomically distant loci. Here, we report both genomically local and distal RNA-dependent rol...
ORGANISM(S): Mus musculus 
2014-12-03 | E-GEOD-62032 | biostudies-arrayexpress
GenomicsEpigenetic conservation at gene regulatory elements revealed by non-methylated DNA profiling in seven vertebrates
Two-thirds of gene promoters in mammals are associated with regions of non-methylated DNA, called CpG islands (CGIs), which counteract the repressive effects of DNA methylation. In lower vertebrates, computational CGI predictions often reside away from gene promoters, suggesting a major divergence i...
ORGANISM(S): Xenopus (Silurana) tropicalis 
2013-01-22 | E-GEOD-43512 | biostudies-arrayexpress
TranscriptomicsNext generation sequencing of advanced non-castrate prostate cancer treated with docetaxel chemotherapy
Early chemotherapy for advanced/metastatic non-castration resistant prostate cancer (PCa) may improve overall patient survival. We studied the safety, tolerability and early efficacy of up-front docetaxel chemotherapy and androgen deprivation therapy (ADT) versus ADT alone for patients with newly-d...
ORGANISM(S): Homo sapiens 
2014-09-18 | E-GEOD-51005 | biostudies-arrayexpress
TranscriptomicsGene expression in thymic epithelial cells [RNA-seq]
This study set out to assay the (polyA+) transcriptomes of specific FACS sorted populations of mouse thymic epithelial cells (TEC). Two biological replicates of each of seven murine TEC populations were FACS sorted and sequenced.
ORGANISM(S): Mus musculus 
2014-09-04 | E-GEOD-53110 | biostudies-arrayexpress
TranscriptomicsTranscriptome of mouse erythroid cells (part1) poly(A)+
We report genome-wide maps of transcription in mouse erythroid cells. We used an approach to survey poly(A)+ (mRNA) (GSE26877) and non-polyadenylated RNA poly(A)- (GSE27920) separately. This provides an alternative framework for comprehensive transcriptome profiling in mammalian cells. Two Samples. ...
ORGANISM(S): Mus musculus 
2012-01-30 | E-GEOD-26877 | biostudies-arrayexpress
TranscriptomicsThe Wnt/β-catenin-signaling pathway is modulated by androgen ablation therapy for advanced clinical prostate cancer and contributes to androgen independent cell growth
Androgen ablation therapy (AAT) is standard treatment for locally-advanced/metastatic prostate cancer (PCa). Many patients develop castration-resistance (CRPCa) after ~2-3 years, with a poor prognosis. The molecular mechanisms underlying CRPCa progression are unclear. mRNA-Seq was performed on tu...
ORGANISM(S): Homo sapiens 
2013-10-07 | E-GEOD-48403 | biostudies-arrayexpress
GenomicsEGAS00001001204-sc-20150415 - samples
Development of a method for separation and parallel sequencing of the genomes and transcriptomes of single cells.
EGAD00001001332 | EGA
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