Browse
Submit Data
Databases
API
Help

Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

45 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Transcription profiling of normal, tumor and pure stromal tissue samples from patients with prostate adenocarcinoma, together with 4 cell lines

ABSTRACT: We have used normal, tumoral and pure stromal whole tissue samples, and cells lines in order to identify new markers of prostate cancer.
The normal, tumoral and stromal tissue were obtained from patients diagnosed with prostate adenocarcinoma.

ORGANISM(S): Homo sapiens

DISEASE(S): adenocarcinoma

SUBMITTER: Timothy Thomson

PROVIDER: E-MEXP-1331 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Publications

Co-regulation analysis of closely linked genes identifies a highly recurrent gain on chromosome 17q25.3 in prostate cancer.

Bermudo Raquel R Abia David D Ferrer Berta B Nayach Iracema I Benguria Alberto A Zaballos Angel A del Rey Javier J Miró Rosa R Campo Elías E Martínez-A Carlos C Ortiz Angel R AR Fernández Pedro L PL Thomson Timothy M TM

BMC cancer 20081030

<h4>Background</h4>Transcriptional profiling of prostate cancer (PC) has unveiled new markers of neoplasia and allowed insights into mechanisms underlying this disease. Genomewide analyses have also identified new chromosomal abnormalities associated with PC. The combination of both classes of data for the same sample cohort might provide better criteria for identifying relevant factors involved in neoplasia. Here we describe transcriptional signatures identifying distinct normal and tumoral pro ...[more]

PMID: 18973659

Similar Datasets

Transcription profiling of human primary prostate epithelial and stromal cells exposed to 4-methylsulphinylbutyl and 3-methylsulphinypropyl isothiocyanates

Project description:BACKGROUND: Broccoli consumption has been associated with a reduction in risk of prostate cancer. Isothiocyanates (ITC) derived from glucosinolates that accumulate in broccoli are potential dietary compounds that may mediate these health effects. Sulforaphane (SF, 4-methylsulphinylbutyl ITC) accumulates in heading broccoli (calabrese) and iberin (IB, 3-methylsulphinypropyl ITC) accumulates in sprouting broccoli. While, there are many studies regarding the biological activity of SF, there are few studies associated with IB. Moreover, the majority of studies have been undertaken with transformed cells, usually epithelial in origin, that have cancerous phenotypes. METHOD: Primary epithelial and stromal cells were derived from benign prostatic hyperplasia tissue. Affymetrix U133 Plus 2.0 whole genome arrays were used to quantify global gene expression changes in these cells, following exposure to physiologically appropriate concentrations of SF and IB. Ontology and pathway analyses were used to interpret results. Changes in expression of a subset of genes were confirmed by RT PCR. RESULTS: Global gene expression profiling identified epithelial and stromal specific gene expression profiles. IB and SF induced different changes in gene expression in both epithelial and stromal cells but these changes were associated with similar functions CONCLUSION: This data suggests that IB and SF both induce genes associated with cancer prevention, and IB should be further investigated as a potential chemo-preventative target.

2009-06-05 | E-MEXP-2034 | biostudies-arrayexpress

Transcription profiling of human ollicular lymphoma patients treated with R-CHOP

Project description:We used gene expression profiling and pathway impact analyses to search signaling pathways, which mediate crosstalk between lymphoma cells and tumor-infiltrating inflammatory cells and contribute to the outcome of follicular lymphoma (FL) patients. 24 FL patients treated with rituximab and CHOP (cyclophosphamide, doxorubicin, vincristine, prednisone) chemotherapy were classified into groups of favorable or adverse outcomes, and the transcripts differentially expressed in the pretreatment FL tissues between the groups were analyzed.

2009-08-15 | E-MEXP-2305 | biostudies-arrayexpress

MicroRNA profiling by array of mouse prostate cancer cell lines treated with dihydrotestosterone and prostate xenografts in intact or castrated mice

Project description:Effect of dihydrotestosterone and castration on microRNA expression

2011-02-25 | E-MEXP-2602 | biostudies-arrayexpress

Transcript profiling of the wild type Arabidopsis grown under different photoperiods

Project description:Arabidopsis rosette leaves were harvested from plants grown under different photoperiods under 100 M-5mol photons m-2 s-1 at 20 M-0C. In the first experiment plants grown under short day conditions 8L/16D (8 h light / 16 h dark) for 4 weeks were compared with plants grown under long day (16L/8D) for 3 weeks. In the second experiment plants grown under 12L/12D for 2 weeks were compared with plants grown first 2 weeks under 12L/12D and then two days under short day (8L/16D) conditions.

2012-07-27 | E-MEXP-3331 | biostudies-arrayexpress

Transcription profiling of human CD4 regulatory T cells that express either CD45RA or CD45RO

Project description:CD4 T cells taken from 6 donors were sorted into CD25hi CD45RA+ (naï¿½ve Treg), CD25hi CD45RO+ (memory Treg), CD25- CD45RA+ (naï¿½ve responder) and CD25- CD45RO+ (memory responder) populations. RNA was extracted (Ambion RNAqueous), amplified (SMART), labelled with cy3, mixed with cy5 labelled human reference (Stratagene), and hybridised to slides printed with Human AROS v4.0 oligonucleotides (Operon). Slides were scanned using a Perkin Elmer GX plus, and the data then normalised with GEPAS v4.0 and collated. One sample was deemed to be of too low hybridisation quality, and was hence removed at this point. Final data analysis was carried out using TMEV 4.0. SAM was performed using a 10% FDR. HCL and PCA were plotted from this list, and interrogation carried out using DAVID to determine pathway enrichment

2009-10-05 | E-MEXP-2372 | biostudies-arrayexpress

MicroRNA profiling of human HeLa cells in hypoxia or normoxia

Project description:Comparison of microRNA expression HeLa cells in hypoxia or normoxia

2009-01-01 | E-MEXP-1790 | biostudies-arrayexpress

SNP array Multi-omics molecular profiling of primary prostate adenocarcinoma

Project description:Multi-omics molecular profiling was performed on post-radical prostatectomy material from a cohort of 132 patients with localized prostate adenocarcinoma. Unsupervised classification techniques were used to build a comprehensive classification of prostate tumours based on three molecular levels: DNA copy number, DNA methylation, and mRNA expression.

2018-07-09 | E-MTAB-6127 | biostudies-arrayexpress

SNP array for Multi-omics molecular profiling of primary prostate adenocarcinoma

2018-06-24 | E-MTAB-6126 | biostudies-arrayexpress

Chromatin immunoprecipitation of trimethylated histone H3-K27 in human prostate cancer cell line PC3

Project description:Epigenetic silencing in cancer cells is mediated by at least two distinct histone modifications, polycomb based histone H3 lysine 27 trimethylation (H3K27triM) and H3K9 dimethylation. Using chromatin immunoprecipitation-microarrays (ChIP-chip) in prostate cancer cells, we found that up to 5% of promoters (16% CpG islands and 84% non-CpG islands) were enriched with H3K27triM. These genes were silenced specifically in prostate cancer, and those CpG islands affected showed low levels of DNA methylation.

2008-04-26 | E-MEXP-1585 | biostudies-arrayexpress

Transcription profiling of mouse liver from wild type and Foxa2 knock out strains fed on standard diet

Project description:Transcriptional profiling of changes in global hepatic gene expression in mice lacking Foxa2 in the liver (Foxa2loxP/loxP;Alfp.Cre) on standard rodent diet

2009-05-01 | E-MEXP-2106 | biostudies-arrayexpress

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data