Gene Set: ODONNELL_METASTASIS_DN

Standard name ODONNELL_METASTASIS_DN
Systematic name M6311
Brief description Down-regulated genes in the signature set for lymph node metastasis in head and neck squamous cell carcinoma (HNSCC).
Full description or abstract Metastasis via the lymphatics is a major risk factor in squamous cell carcinoma of the oral cavity (OSCC). We sought to determine whether the presence of metastasis in the regional lymph node could be predicted by a gene expression signature of the primary tumor. A total of 18 OSCCs were characterized for gene expression by hybridizing RNA to Affymetrix U133A gene chips. Genes with differential expression were identified using a permutation technique and verified by quantitative RT-PCR and immunohistochemistry. A predictive rule was built using a support vector machine, and the accuracy of the rule was evaluated using crossvalidation on the original data set and prediction of an independent set of four patients. Metastatic primary tumors could be differentiated from nonmetastatic primary tumors by a signature gene set of 116 genes. This signature gene set correctly predicted the four independent patients as well as associating five lymph node metastases from the original patient set with the metastatic primary tumor group. We concluded that lymph node metastasis could be predicted by gene expression profiles of primary oral cavity squamous cell carcinomas. The presence of a gene expression signature for lymph node metastasis indicates that clinical testing to assess risk for lymph node metastasis should be possible.
Collection C2: curated gene sets
      CGP: chemical and genetic perturbations
Source publication Pubmed 15558013   Authors: O'Donnell RK,Kupferman M,Wei SJ,Singhal S,Weber R,O'Malley B,Cheng Y,Putt M,Feldman M,Ziober B,Muschel RJ
Exact source Table 1S
Related gene sets (show 1 additional gene sets from the source publication)

(show 12 gene sets from the same authors)
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Organism Homo sapiens
Contributed by Leona Saunders (Broad Institute)
Source platform HG-U133A
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Compendia expression profiles Human tissue compendium (Novartis)
NCI-60 cell lines (National Cancer Institute)
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Version history 3.0: First introduced

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