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TranscriptomicsAltered antisense-to-sense transcript ratios in breast cancer: Agilent
Transcriptome profiling studies suggest that a large fraction of the genome is transcribed and many transcripts function independent of their protein coding potential. The relevance of noncoding RNAs (ncRNAs) in normal physiological processes and in tumorigenesis is increasingly recognized. Here, we...
ORGANISM(S): Homo sapiens 
2010-12-10 | E-GEOD-26000 | biostudies-arrayexpress
TranscriptomicsAltered antisense-to-sense transcript ratios in breast cancer: ASSAGE
Transcriptome profiling studies suggest that a large fraction of the genome is transcribed and many transcripts function independent of their protein coding potential. The relevance of noncoding RNAs (ncRNAs) in normal physiological processes and in tumorigenesis is increasingly recognized. Here, we...
ORGANISM(S): Homo sapiens 
2010-12-10 | E-GEOD-25932 | biostudies-arrayexpress
TranscriptomicsMolecular profiling of human mammary gland links breast cancer risk to a p27+ cell population with progenitor characteristics
Gene expression, DNA and histone methylation profiles were performed on multiple cell types purified from normal human nulliparous and parous breast tissue using SAGE-seq, MSDK-seq and ChIP-seq [GSE26141]. SAGE-seq, MSDK-seq and ChIP-seq libraries were made from individual cell types and integrated ...
ORGANISM(S): Homo sapiens 
2013-06-13 | E-GEOD-32017 | biostudies-arrayexpress
TranscriptomicsSAGE-Seq gene expression profiles of Hs578T, MCF7, and SUM159PT cells treated with STAT3 or non-targeting siRNAs, DMSO, or CXCR2, PTGIS, HAS1, PFKFB3, JAK, or NQO1 inhibitor
To investigate potential links between Stat3 transcriptional activity and other signaling pathways in breast cancer, we determined the gene expression profiles of three breast cancer cell lines treated with JAK, PTGIS, PFKFB3, CXCR2, HAS1, or NQO1 inhibitor (all of which decreased Stat3 transcriptio...
ORGANISM(S): Homo sapiens 
2011-09-08 | E-GEOD-22917 | biostudies-arrayexpress
TranscriptomicsGene expression profiling of human tissue samples using SAGE-Seq
We present a powerful application of ultra high-throughput sequencing, SAGE-Seq, for the accurate quantification of normal and neoplastic mammary epithelial cell transcriptomes. We develop data analysis pipelines that allow the mapping of sense and antisense strands of mitochondrial and RefSeq genes...
ORGANISM(S): Homo sapiens 
2010-10-05 | E-GEOD-24491 | biostudies-arrayexpress
GenomicsEpigenetic regulation of cell type-specific expression patterns in the human mammary epithelium [ChIP-Seq]
Here we describe the application of high-throughput sequencing technology for profiling histone and DNA methylation, and gene expression patterns of normal human mammary progenitor-enriched and luminal lineage-committed cells. We observed significant differences in histone H3 lysine 27 tri-methylati...
ORGANISM(S): Homo sapiens 
2011-03-01 | E-GEOD-26137 | biostudies-arrayexpress
TranscriptomicsAltered antisense-to-sense transcript ratios in breast cancer: Sage-Seq
Transcriptome profiling studies suggest that a large fraction of the genome is transcribed and many transcripts function independent of their protein coding potential. The relevance of noncoding RNAs (ncRNAs) in normal physiological processes and in tumorigenesis is increasingly recognized. Here, we...
ORGANISM(S): Homo sapiens 
2010-12-10 | E-GEOD-25291 | biostudies-arrayexpress
GenomicsEpigenetic regulation of cell type-specific expression patterns in the human mammary epithelium [MSDK-Seq]
Here we describe the application of high-throughput sequencing technology for profiling histone and DNA methylation, and gene expression patterns of normal human mammary progenitor-enriched and luminal lineage-committed cells. We observed significant differences in histone H3 lysine 27 tri-methylati...
ORGANISM(S): Homo sapiens 
2011-03-01 | E-GEOD-26139 | biostudies-arrayexpress
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