title: A combined comparative genomic hybridization and expression microarray analysis of gastric cancer reveals novel molecular subtypes.
abstract: Comparative genomic hybridization (CGH), microsatellite instability (MSI) assays, and expression microarrays were used to molecularly subclassify a common set of gastric tumor samples. We identified a number of novel genomic aberrations associated with gastric cancer and discovered that gastric tumors could be grouped by their expression profiles into three broad classes: "tumorigenic," "reactive," and "gastric-like." Patients with gastric-like tumors exhibited a significantly better overall survival than patients belonging to the other two classes (P < 0.05). A novel supervised learning methodology for multiclass prediction was used to identify optimal predictor gene sets that accurately predicted the class of an unknown tumor sample. These predictor sets may prove useful in the development of new diagnostic applications for gastric cancer staging and prognostication.
authors.affiliation: Cellular and Molecular Research, National Cancer Centre, Singapore 169610, Republic of Singapore.
authors.forename: Su Ting
authors.initials: ST
authors.lastname: Tay
authors.forename: Siew Hong
authors.initials: SH
authors.lastname: Leong
authors.forename: Kun
authors.initials: K
authors.lastname: Yu
authors.forename: Amit
authors.initials: A
authors.lastname: Aggarwal
authors.forename: Soo Yong
authors.initials: SY
authors.lastname: Tan
authors.forename: Chee How
authors.initials: CH
authors.lastname: Lee
authors.forename: Keith
authors.initials: K
authors.lastname: Wong
authors.forename: Jaya
authors.initials: J
authors.lastname: Visvanathan
authors.forename: Dennis
authors.initials: D
authors.lastname: Lim
authors.forename: Wai Keong
authors.initials: WK
authors.lastname: Wong
authors.forename: Khee Chee
authors.initials: KC
authors.lastname: Soo
authors.forename: Oi Lian
authors.initials: OL
authors.lastname: Kon
authors.forename: Patrick
authors.initials: P
authors.lastname: Tan
mesh_terms: D000230:Adenocarcinoma / Q000737:chemistry / Q000145:classification / Q000235:genetics* / Q000401:mortality; D000465:Algorithms; D014408:Biomarkers, Tumor / Q000032:analysis / Q000235:genetics; D020869:Gene Expression Profiling / Q000379:methods*; D015972:Gene Expression Regulation, Neoplastic; D006801:Humans; D015993:Life Tables; D008285:Major Histocompatibility Complex; D008679:Metaplasia; D018895:Microsatellite Repeats; D009363:Neoplasm Proteins / Q000032:analysis / Q000145:classification / Q000235:genetics*; D009693:Nucleic Acid Hybridization; D020411:Oligonucleotide Array Sequence Analysis; D010641:Phenotype; D013272:Stomach Diseases / Q000235:genetics / Q000378:metabolism; D013274:Stomach Neoplasms / Q000737:chemistry / Q000145:classification / Q000235:genetics* / Q000401:mortality; D016019:Survival Analysis
chemical_list: D014408:Biomarkers, Tumor; D009363:Neoplasm Proteins