title: Expression profiling and subtype-specific expression of stomach cancer.
abstract: The expression profiling and molecular grouping of stomach cancers has been a challenging task because of their complexity and variation. We have analyzed gene expression profiles of 22 gastric cancer/nontumor mucosa couples using 14K cDNA microarray chips designed for gastric cancer analysis. Upon pairwise analysis of the individual couples at the false significance rate 0.91%, 79 and 398 genes were reported to be up-regulated and down-regulated in tumors, respectively. Tumors were clustered into two groups having high and low inflammatory infiltration, respectively. The latter consisted of three subgroups, including diffuse type carcinomas and intestinal types with distinct pathological characteristics of aggressive behavior. When the pooled tumor was hybridized against the pooled nontumor mucosa samples, more genes were detected to express differentially than those detected by the pairwise analysis at the same threshold level. However, they did not render satisfactory clustering of individual tumors. Our data showed that stomach cancers could be clustered effectively using stomach-specific microarrays and pairwise analysis of tumor/nontumor mucosa couples. It is suggested that the application of specific goal-oriented experimental designing would be advantageous for efficient analysis of expression profiles of such a complex disease as gastric cancer.
authors.affiliation: Department of General Surgery, University of Ulsan College of Medicine, Seoul, Korea.
authors.forename: Byungsik
authors.initials: B
authors.lastname: Kim
authors.forename: Seunghyun
authors.initials: S
authors.lastname: Bang
authors.forename: Seungkoo
authors.initials: S
authors.lastname: Lee
authors.forename: Soonok
authors.initials: S
authors.lastname: Kim
authors.forename: Yusun
authors.initials: Y
authors.lastname: Jung
authors.forename: Changhee
authors.initials: C
authors.lastname: Lee
authors.forename: Kyungho
authors.initials: K
authors.lastname: Choi
authors.forename: Seong-Gene
authors.initials: SG
authors.lastname: Lee
authors.forename: Kiwhan
authors.initials: K
authors.lastname: Lee
authors.forename: Yongsung
authors.initials: Y
authors.lastname: Lee
authors.forename: Sang-Soo
authors.initials: SS
authors.lastname: Kim
authors.forename: Yeong-Il
authors.initials: YI
authors.lastname: Yeom
authors.forename: Yong-Sung
authors.initials: YS
authors.lastname: Kim
authors.forename: Hyang-Sook
authors.initials: HS
authors.lastname: Yoo
authors.forename: Kyuyoung
authors.initials: K
authors.lastname: Song
authors.forename: Inchul
authors.initials: I
authors.lastname: Lee
mesh_terms: D000328:Adult; D000368:Aged; D016000:Cluster Analysis; D005260:Female; D005753:Gastric Mucosa / Q000378:metabolism / Q000502:physiology; D020869:Gene Expression Profiling; D015972:Gene Expression Regulation, Neoplastic; D006801:Humans; D008297:Male; D008875:Middle Aged; D020411:Oligonucleotide Array Sequence Analysis; D013274:Stomach Neoplasms / Q000145:classification* / Q000235:genetics / Q000378:metabolism