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GenomicFunctionally Active Copy Number Variants Associated with Prostate Cancer Risk

Prostate cancer is a leading cause of cancer death in males throughout the world and has the largest estimated effect of heritability among the most common tumor types. Copy Number Variants (CNVs) are a recently recognized class of human germline polymorphisms (Iafrate AJ, et al. (2004) Nat Genet...

phs000487 | dbGaP
TranscriptomicsmRNA profiling of LNCaP cells treated with miR-31
To determine the altered microRNA expression signature in human prostate cancer compared to benign prostate tissue. To determine the altered mRNA expression signatures upon overexrpession miR-31 in prostate cancer cells. Two condition experiments:1) Total RNA from 21 pairs of prostate cancers and ma...
ORGANISM(S): Homo sapiens 
2013-02-05 | E-GEOD-36801 | biostudies-arrayexpress
TranscriptomicsPaired human prostate cancer and benign prostate tissues, and LNCaP cells treated with miR-31
This SuperSeries is composed of the SubSeries listed below. Refer to individual Series
ORGANISM(S): Homo sapiens 
2013-02-05 | E-GEOD-36803 | biostudies-arrayexpress
TranscriptomicsmicroRNA profiling in paired human prostate cancer and benign prostate tissue
To determine the altered microRNA expression signature in human prostate cancer compared to benign prostate tissue. To determine the altered mRNA expression signatures upon overexrpession miR-31 in prostate cancer cells. Two condition experiments:1) Total RNA from 21 pairs of prostate cancers and ma...
ORGANISM(S): Homo sapiens 
2013-02-05 | E-GEOD-36802 | biostudies-arrayexpress
UnknownClinical and Genomic Characterization of Treatment-Emergent Small-Cell Neuroendocrine Prostate Cancer: A Multi-institutional Prospective Study.
Not available
S-EPMC6366813 | biostudies-literature
GenomicsOncogene-Mediated Alterations in Chromatin Conformation
Emerging evidence suggests that chromatin adopts a non-random three-dimensional (3D) topology and that the organization of genes into structural hubs and domains affects their transcriptional status. How chromatin conformation changes in diseases such as cancer is poorly understood. Moreover, how on...
ORGANISM(S): Homo sapiens 
2012-05-23 | E-GEOD-37752 | biostudies-arrayexpress
GenomicsFusionSeq: a modular framework for finding gene fusions by analyzing Paired-End RNA-Sequencing data

We have developed FusionSeq to identify fusion transcripts from paired-end RNA-sequencing. FusionSeq includes filters to remove spurious candidate fusions with artifacts such as misalignments or random pairing of transcript fragments and it ranks candidates according to several statistics. It a...

phs000311.v1.p1 | EGA
TranscriptomicsGenotyping of human glioma - assessing the significance of chromosomal aberrations in cancer
Comprehensive knowledge of the genomic alterations that underlie cancer is a critical foundation for diagnostics, prognostics and targeted therapeutics. Systematic efforts to analyze cancer genomes are underway, but the analysis is hampered by the lack of a statistical framework to distinguish mean...
ORGANISM(S): Homo sapiens 
2008-06-17 | E-GEOD-9635 | biostudies-arrayexpress
GenomicsDiscovery of Non-ETS Gene Fusions in Human Prostate Cancer using Next Generation RNA Sequencing

Half of prostate cancers harbor gene fusions between TMPRSS2 and members of the ETS transcription factor family. To date little is known about the presence of non-ETS fusion events in prostate cancer. We employed next-generation transcriptome sequencing (RNA-Seq) in order to e...

phs000310.v1.p1 | EGA
GenomicsGenome-wide DNA methylation events in TMPRSS2:ERG fusion negative prostate cancers implicate an EZH2 dependent mechanism with miRNA-26a hypermethylation.
Prostate cancer is the second most common cancer among men worldwide. Alterations in the DNA methylation pattern can be one of the leading causes for prostate cancer formation. This study is the first high throughput sequencing study investigating genome-wide DNA methylation patterns in a large coho...
ORGANISM(S): Homo sapiens 
2012-12-06 | E-GEOD-35342 | biostudies-arrayexpress
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