Human Gene Set: BUFFA_HYPOXIA_METAGENE


Standard name BUFFA_HYPOXIA_METAGENE
Systematic name M34030
Brief description Common genes regulated by hypoxia across multiple head and neck and breast cancer clinical cohorts, and prognostic in multiple cancer types
Full description or abstract Hypoxia is a key factor promoting solid tumour progression and resistance to therapy. Hypoxia biomarkers have the potential to predict prognosis and/or benefit from particular interventions. An approach combining knowledge of gene function and analysis of in vivo co-expression patterns was used to derive a gene expression signature of hypoxia. Specifically, previously validated hypoxia-regulated genes (seeds) were used to generate a co-expression network. To guarantee generality and robustness of this network, bootstrap was used to select genes that were consistently co-expressed with the hypoxia seeds in multiple cancers cohorts and across cancer types (three head and neck and five breast cancer clinical cohorts were used in this phase). Genes with the highest connectivity in the resulting co-expression gene network were extracted to form a hypoxia gene signature. This signature was highly enriched for hypoxia-regulated pathways, enriched for targets of the Hypoxia-Inducible Factor (HIF)-1 as determined in ChipSeq and HIF know-down experiments, and prognostic. Validation in independent data sets of head and neck, breast and lung cancer showed that this signature outperformed previously reported hypoxia gene signatures.
Collection C2: Curated
      CGP: Chemical and Genetic Perturbations
Source publication Pubmed 20087356   Authors: Buffa FM,Harris AL,West CM,Miller CJ
Exact source Table S5. Common Hypoxia Signature Genes ranked by the Common Connectvity Score (from highest to lowest) and their expression changes in cell lines experiments of hypoxia exposure and HIF1a siRNA
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Source species Homo sapiens
Contributed by Francesca Buffa (University of Oxford)
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identifier namespace		 AFFY_HG_U133
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