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Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

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Gene expression profiling of 19 bladder cancers from the University of Virginia

ABSTRACT: Given the heterogeneity of disease evident from study of the presentation, histomorphology, disease course, and molecular lesions of bladder cancer, a cohort of 8 non-muscle invasive and 11 muscle invasive bladder cancers were profiled for gene expression using the Affymetrix HG-U133A platform. Under an IRB-approved protocol, snap frozen tissues for 19 cases of bladder cancer were procured and profiled for gene expression using Affymetrix HG-U133A microarrays.

ORGANISM(S): Homo sapiens

SUBMITTER: Steven Smith

PROVIDER: E-GEOD-37317 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Gene expression profiling of 19 bladder cancers from the University of Virginia

Project description:Given the heterogeneity of disease evident from study of the presentation, histomorphology, disease course, and molecular lesions of bladder cancer, a cohort of 8 non-muscle invasive and 11 muscle invasive bladder cancers were profiled for gene expression using the Affymetrix HG-U133A platform.

2012-12-24 | GSE37317 | GEO

Discovery of genes regulated by the metastasis suppressor gene, RhoGDI2

Project description:A number of studies find that metastasis suppressor proteins, including RhoGDI2, may function in part though controlling expression of genes regulating metastasis (reviewed in Smith and Theodorescu, Nature Reviews Cancer, 2009, PMID: 19242414). To uncover systematically gene expression patterns dependent on RhoGDI2 expression, we profiled gene expression in stably transfected control (GFP empty vector) UM-UC-3 bladder carcinoma cells (which have lost endogenous expression of RhoGDI2, as occurs commonly in the progression of bladder cancer PMID: 15173088), as well as stably transfected GFP-tagged RhoGDI2 expressing UM-UC-3 cells. References: Moissoglu K, McRoberts KS, Meier JA, Theodorescu D et al. Rho GDP dissociation inhibitor 2 suppresses metastasis via unconventional regulation of RhoGTPases. Cancer Res 2009 Apr 1;69(7):2838-44. PMID: 19276387 Wu Y, Moissoglu K, Wang H, Wang X et al. Src phosphorylation of RhoGDI2 regulates its metastasis suppressor function. Proc Natl Acad Sci U S A 2009 Apr 7;106(14):5807-12. PMID: 19321744 Smith SC, Theodorescu D. Learning therapeutic lessons from metastasis suppressor proteins. Nat Rev Cancer 2009 Apr;9(4):253-64. PMID: 19242414 Theodorescu D, Sapinoso LM, Conaway MR, Oxford G et al. Reduced expression of metastasis suppressor RhoGDI2 is associated with decreased survival for patients with bladder cancer. Clin Cancer Res 2004 Jun 1;10(11):3800-6. PMID: 15173088 Two paired biological replicates of GFP (control) and GFP-RhoGDI2 (experimental) UM-UC-3 cells were prepared at different times, isolated during log phase growth, and subjected to gene expression profiling using the Affymetrix HG-U133 Plus 2.0 oligonucleotide microarray platform.

2012-04-14 | E-GEOD-35014 | biostudies-arrayexpress

Bladder Cancer 40 Cell Lines

Project description:40 bladder cancer cell lines were profiled with their genome-wide gene expression patterns using Affymetrix HG-U133A chips. Keywords: bladder cancer cell line expression profiling

2009-08-26 | GSE5845 | GEO

Transcription profiling of human bladder cancer 40 cell lines

Project description:40 bladder cancer cell lines were profiled with their genome-wide gene expression patterns using Affymetrix HG-U133A chips. Experiment Overall Design: Total RNA sample of each of the 40 cell lines was obtained before the treatment of any anticancer compound.

2009-09-15 | E-GEOD-5845 | biostudies-arrayexpress

Expression data from Gambian children with and without the clinical signs of active trachoma: HG-focus array

Project description:Results from 29 samples tested on the Affymetrix HG-focused target array identified transcriptional changes characteristic of ocular disease and ocular Chlamydia trachomatis infection phenotypes. Large numbers of differentially regulated genes were demonstrated. These were characteristic of the host defence response and typical of innate responses at epithelial surfaces and infiltrating leukocytes. These results provide an insight into the complexity of the acute response in trachoma. Samples from 29 participants were tested on the HG-Focus target arrays (17 participants with clinical signs of active trachoma and 12 study participants with normal conjunctivas from the same trachoma endemic population as controls). Conjunctival samples from an additional 60 participants were tested on U133 plus 2.0 arrays and are reported elsewhere. This second set of independent samples was used to assess different gene classifier selection methods and validation tests using >8500 common probe-sets shared between HG-focus target and U133 plus 2.0 arrays. Potential biomarkers of disease and infection are identified.

2010-09-03 | E-GEOD-20430 | biostudies-arrayexpress

NCI-60 Cancer Cell Line

Project description:NCI-60 cancer cell lines were profiled with their genome-wide gene expression patterns using Affymetrix HG-U133A chips. Keywords: NCI-60 cancer cell line expression profiling

2009-08-26 | GSE5846 | GEO

Transcription profiling of human NCI-60 Cancer Cell Line

Project description:NCI-60 cancer cell lines were profiled with their genome-wide gene expression patterns using Affymetrix HG-U133A chips. Experiment Overall Design: Total RNA sample of each of the NCI-60 cell lines was obtained before the treatment of any anticancer compound.

2009-09-15 | E-GEOD-5846 | biostudies-arrayexpress

Homo sapiens

Project description:Inflammatory bowel disease (HG-U133A)

| PRJNA87261 | ENA

Homo sapiens

Project description:Affymetrix HG-U133A 2.0 Expression data

| PRJNA127807 | ENA

Detection call p-values for Affymetrix low level spike-in experiment

Project description:Four different concentrations (0, 0.75, 1.5, 3 pM) of genes were spiked in groups (group size 6-7 transcripts) Each concentration combination were spiked into a common backgroung sample (HeLa cell line) and hybridized to three HG-U133A Plus 2.0 Arrays. Keywords: Latin square design for HG-U133A Plus 2.0 GeneChips

2009-11-10 | GSE17968 | GEO

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