Gene Set: INAMURA_LUNG_CANCER_SCC_SUBTYPES_UP

Standard name INAMURA_LUNG_CANCER_SCC_SUBTYPES_UP
Systematic name M1256
Brief description Up-regulated genes discriminating between two subtypes of squamous cell carcinoma (SCC) type of non-small cell lung cancer: SSC-A vs SSC-B.
Full description or abstract Current clinical and histopathological criteria used to define lung squamous cell carcinomas (SCCs) are insufficient to predict clinical outcome. To make a clinically useful classification by gene expression profiling, we used a 40 386 element cDNA microarray to analyse 48 SCC, nine adenocarcinoma, and 30 normal lung samples. Initial analysis by hierarchical clustering (HC) allowed division of SCCs into two distinct subclasses. An additional independent round of HC induced a similar partition and consensus clustering with the non-negative matrix factorization approach indicated the robustness of this classification. Kaplan-Meier analysis with the log-rank test pointed to a nonsignificant difference in survival (P = 0.071), but the likelihood of survival to 6 years was significantly different between the two groups (40.5 vs 81.8%, P = 0.014, Z-test). Biological process categories characteristic for each subclass were identified statistically and upregulation of cell-proliferation-related genes was evident in the subclass with poor prognosis. In the subclass with better survival, genes involved in differentiated intracellular functions, such as the MAPKKK cascade, ceramide metabolism, or regulation of transcription, were upregulated. This work represents an important step toward the identification of clinically useful classification for lung SCC.
Collection C2: curated gene sets
      CGP: chemical and genetic perturbations
Source publication Pubmed 16007138   Authors: Inamura K,Fujiwara T,Hoshida Y,Isagawa T,Jones MH,Virtanen C,Shimane M,Satoh Y,Okumura S,Nakagawa K,Tsuchiya E,Ishikawa S,Aburatani H,Nomura H,Ishikawa Y
Exact source Table 3: up in SCC-A
Related gene sets (show 3 additional gene sets from the source publication)

(show 57 gene sets from the same authors)
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Organism Homo sapiens
Contributed by Arthur Liberzon (Broad Institute)
Source platform SEQ_ACCESSION
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Compendia expression profiles Human tissue compendium (Novartis)
NCI-60 cell lines (National Cancer Institute)
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Version history 3.1: First introduced

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