Ontology highlight
ABSTRACT:
PROVIDER: PRJNA608841 | ENA |
REPOSITORIES: ENA
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Project description:Prostate adenocarcinoma and matched adjacent normal samples were profiled for copy number with the Agilent 244A CGH Array to support a study of deep transcriptional sequencing on these samples. Two-condition experiment: Prostate adenocarcinoma versus matched normal from three separate patients.
2010-09-23 | E-GEOD-24282 | biostudies-arrayexpress
Project description:Prostate adenocarcinoma and matched adjacent normal samples were profiled for copy number with the Agilent 244A CGH Array to support a study of deep transcriptional sequencing on these samples.
2010-09-23 | GSE24282 | GEO
Project description:Illumina Infinium 450k screening of normal and tumour tissue in a retrospective 28 sample cohort of small bowel adenocarcinoma patients. Average signal and beta values normalised to internal Illumina controls. Comparing DNA methylation differences in a matched normal tumour cohort of 28 small bowel adenocarcinoma patients.
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Project description:Prostate adenocarcinoma and matched adjacent normal samples were profiled by deep transcriptional sequencing to analyze transcription-induced chimeras and gene fusions. Reference samples from the MAQC and brain and universal reference libraries were also sequenced. Two-condition experiment plus reference samples: Prostate adenocarcinoma versus matched normal from three separate patients, plus brain and universal reference samples from the MAQC project.
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Project description:The whole genome DASL HT assay was used in combination with the HumanHT-12 v4 BeadChip for screening normal and tumour tissue in a retrospective 28 sample cohort of small bowel adenocarcinoma patients. Non-normalized and average normalized (background subtracted) data Comparing differences in gene expression in a matched normal tumour cohort of 28 small bowel adenocarcinoma patients.
2015-09-03 | E-GEOD-61465 | biostudies-arrayexpress
Project description:Here, three colorectal tumors were subjected to anti-ORF1p LFQ, IP-MS: (A) Krukenberg Carcinoma, Ovary; (B) Metastatic Rectal Adenocarcinoma, Liver; (C) Adenocarcinoma, Colon. These were accompanied by matched normal IP controls and/or mouse IgG IP controls. The objective is to map LINE-1 RNP interactions in cancer.
2019-08-23 | PXD013743 | Pride
Project description:Next generation sequencing is making sequence-based molecular pathology and personalised oncology viable. We selected an individual initially diagnosed with conventional, but aggressive, prostate adenocarcinoma and sequenced the genome and transcriptome from primary and metastatic tissues collected prior to hormone therapy. The histology-pathology and genomic architecture were remarkably homogeneous, yet it was possible to determine the quadrant of the prostate tumour that likely seeded the metastatic diaspora. Despite a homogenous cell type, our transcriptome analysis revealed signatures of both luminal and neuroendocrine cell types. Remarkably, the repertoire of expressed but private gene fusions, including C15orf21:MYC, recapitulated this biology while the amplification and over expression of the stem cell gene MSI2 may have contributed to the stable hybrid cellular identity. This hybrid luminal-neuroendocrine tumour appears to represent a novel and highly aggressive case of prostate cancer with unique biological features and conceivably a propensity for rapid progression to castrate-resistance. Overall, this work highlights the importance of integrated analyses of genome, exome and transcriptome sequences for basic tumour biology, sequence-based molecular pathology, and personalized oncology.
2011-12-22 | GSE34649 | GEO
Project description:Next generation sequencing is making sequence-based molecular pathology and personalised oncology viable. We selected an individual initially diagnosed with conventional, but aggressive, prostate adenocarcinoma and sequenced the genome and transcriptome from primary and metastatic tissues collected prior to hormone therapy. The histology-pathology and genomic architecture were remarkably homogeneous, yet it was possible to determine the quadrant of the prostate tumour that likely seeded the metastatic diaspora. Despite a homogenous cell type, our transcriptome analysis revealed signatures of both luminal and neuroendocrine cell types. Remarkably, the repertoire of expressed but private gene fusions, including C15orf21:MYC, recapitulated this biology while the amplification and over expression of the stem cell gene MSI2 may have contributed to the stable hybrid cellular identity. This hybrid luminal-neuroendocrine tumour appears to represent a novel and highly aggressive case of prostate cancer with unique biological features and conceivably a propensity for rapid progression to castrate-resistance. Overall, this work highlights the importance of integrated analyses of genome, exome and transcriptome sequences for basic tumour biology, sequence-based molecular pathology, and personalized oncology. 5 samples
2011-12-22 | E-GEOD-34649 | biostudies-arrayexpress
Project description:Prostate adenocarcinoma and matched adjacent normal samples were profiled by deep transcriptional sequencing to analyze transcription-induced chimeras and gene fusions. Reference samples from the MAQC and brain and universal reference libraries were also sequenced.
2010-09-23 | GSE24283 | GEO