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Transcription profiling of human colon tumor tissue samples to identify genes whose expression level correlates with VEGFR-2 expression

ABSTRACT: Transcriptional profiling was conducted on RNA from 59 human colon tumor tissue samples to identify genes whose expression level correlates VEGFR-2 Experiment Overall Design: Baseline gene expression profiling was performed using 59 human colon tumor tissue samples to identify genomic signatures highly correlated with VEGFR-2 gene

ORGANISM(S): Homo sapiens

SUBMITTER: Mark David Ayers

PROVIDER: E-GEOD-7208 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Discovery and validation of biomarkers that respond to treatment with brivanib alaninate, a small-molecule VEGFR-2/FGFR-1 antagonist.

Ayers Mark M Fargnoli Joseph J Lewin Anne A Wu Qiuyan Q Platero J Suso JS

Cancer research 20070701 14

The process of neovascularization from preexisting blood vessels, referred to as angiogenesis, plays a critical role in both tumor growth and dissemination in multiple cancer types. Currently, there exists a need to identify biomarkers that can both indicate biological activity and predict efficacy at the molecular level for antiangiogenesis drugs which are anticipated to result in tumor stasis rather than regression. To identify such biomarkers, athymic mice bearing L2987 human tumor xenografts ...[more]

PMID: 17638901

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Expression data from 59 human colon tumor tissue samples

Project description:Transcriptional profiling was conducted on RNA from 59 human colon tumor tissue samples to identify genes whose expression level correlates VEGFR-2 Keywords: Identfication of genes coexpressed with a specific drug target

2007-04-21 | GSE7208 | GEO

VEGFR-1 expressed by malignant melanoma initiating cells is required for tumor growth

Project description:Melanoma growth is driven by malignant melanoma initiating cells (MMIC) identified by expression of the ATP-binding cassette (ABC) member, ABCB5. ABCB5+ melanoma subpopulations have been shown to overexpress the vasculogenic differentiation markers CD144 (VE-cadherin) and TIE-1 and are associated with CD31-negative vasculogenic mimicry (VM), an established biomarker associated with increased patient mortality. Here we identify a critical role for VEGFR-1 signaling in ABCB5+ MMIC-dependent VM and tumor growth. Global gene expression analyses, validated by mRNA and protein determinations, revealed preferential expression of VEGFR-1 on ABCB5+ tumor cells purified from clinical melanomas and established melanoma lines. In vitro, VEGF induced in a VEGFR-1-dependent manner expression of CD144 in ABCB5+ subpopulations that constitutively expressed VEGFR-1, but not in ABCB5- bulk populations that were predominantly VEGFR-1-negative. In vivo, melanomaspecific shRNA-mediated knockdown of VEGFR-1 blocked the development of ABCB5+ VM morphology and inhibited ABCB5+ VM-associated production of the secreted melanoma mitogen, laminin. Moreover, melanoma-specific VEGFR-1 knockdown markedly inhibited tumor growth (by >90%). Our results demonstrate that VEGFR-1 function in MMIC regulates VM and associated laminin production, and show that this function represents one mechanism through which MMIC promote tumor growth.

2011-01-13 | GSE26569 | GEO

VEGFR-1 expressed by malignant melanoma initiating cells is required for tumor growth

2011-01-13 | E-GEOD-26569 | biostudies-arrayexpress

Identification of HGF/c-MET as a biomarker of resistance to Vascular Endothelial Growth Factor Receptor (VEGFR) inhibitors

Project description:Therapeutic resistance to VEGFR signaling inhibitors is a major obstacle in the treatment of non-small cell lung cancer (NSCLC). We investigated the contribution of stromal and tumor cells to resistance of NSCLC to VEGFR tyrosine kinase inhibitors (TKIs). Gene expression analysis of stromal (mouse) and tumor (human) compartments enabled us to identify the HGF/c-MET pathway as a driver and a potential biomarker of VEGFR TKI resistance.

2017-07-06 | GSE64472 | GEO

Homo sapiens

Project description:Expression data from 59 human colon tumor tissue samples

| PRJNA98327 | ENA

Hypoxia activated TH-302 with VEGFR-2 blockade elicits G-MDSC accumulation in pancreatic cancer

Project description:Transcriptional profiling of bulk-tumor samples left untreated or treated with TH-302, VEGFR-2 blockade, or the combination

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Lysine Methylation Promotes VEGFR-2 Activation and Angiogenesis

Project description:We have used a chimeric VEGFR-2 in which the extracellular domain of mouse VEGFR-2 was replaced with the extracellular domain of human CSF-1 receptor. VEGFR-2 was immunoprecipitated with anti-VEGFR-2 antibody from PAE cells ectopically expressing VEGFR-2. The immunoprecipitated proteins were eluted and separated on SDS-PAGE, followed by in-gel chymotrypsin or trypsin digestion. The digested samples were analyzed by nano LC/MS/MS on a Thermo Fisher LTQ Orbitrap XL. The LC-MS/MS data were analyzed using Proteome Discoverer (Thermo Fisher Scientific; Version 1.3.0.339). MS/MS search was carried out using Sequest search algorithm against the sequence of target mouse protein from the UniProtKB database. Search parameters included chymotrypsin as the enzyme with four missed cleavage allowed; methylation at lysine and arginine, phosphorylation of serine, threonine, and tyrosine, alkylation at cysteine, and oxidation of methionine were set as dynamic modifications. Precursor and fragment mass tolerance were set to 5 ppm and 0.8 Da, respectively. The false discovery rate was calculated by enabling the peptide sequence analysis using a decoy database. High confidence peptide identifications were obtained by setting a target false discovery rate threshold of 1% at the peptide level.

2019-11-22 | PXD000520 | Pride

Differentially expressed miRNAs in colon cancer tissues vs normal colon tissues

Project description:To investigate the role of miRNAs in the progression of colon cancer, we performed comprehensive miRMA microarray analysis on RNA derived from colon cancer tissues and normal colon tissues. We identified a novel set of colon cancer-related miRNAs. Total RNA was isolated from colon cancer tissues and normal colon tissues. Six-condition experiment: H normal tiss vs. H tumor tissue, S normal tiss vs. S tumor tissue, W1 normal tiss vs. W1 tumor tissue, M normal tiss vs. M tumor tissue, W2 normal tiss vs. W2 tumor tissue, and Y normal tiss vs. Y tumor tissue. Biological replicates: 1H normal tiss, 1H tumor tissue, 1S normal tissM-oM-<M-^L1S tumor tissue, 1W1 normal tissM-oM-<M-^L1W1 tumor tissue, 1M normal tissM-oM-<M-^L1M tumor tissue, 1W2 normal tissM-oM-<M-^L1W2 tumor tissue, 1Y normal tiss and 1Y tumor tissue, independently grown and harvested. One replicate per array.

2013-12-16 | E-GEOD-53339 | biostudies-arrayexpress

Genome-wide analysis of miRNA levels in colon cancer

Project description:Analysis of miRNA levels found in tissue obtained from proficient mismatch repair (pMMR) TNM stage 2|3|4 colon tumor, deficient MMR (dMMR) colon tumor, and normal colon.

2010-03-18 | GSE18392 | GEO

Human bladder cancer and colon cancer quatitative MS/MS

Project description:We analyzed a set of 40 independently collected tumor tissue/control samples using a label-free quantitation single pass LC-MS/MS approach. In this set, 10 samples originated from a colon tumor (i.e. AC) and 10 from control non-malignant tissue samples (NCA), as well as 10 from BC samples and 10 from control bladder tissue (NCB) samples.

2016-12-14 | PXD004249 | Pride

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