title: Estimation of Prognostic Marker Genes by Public Microarray Data in Patients with Ovarian Serous Cystadenocarcinoma.
abstract: OBJECTIVE
  Lymphatic invasion (LI) is regarded as a predictor of the aggressiveness of ovarian cancer (OC). However, LI is not always the major determinant of long-term patient survival. To establish proper diagnosis and treatment for OC, we analyzed differentially expressed genes (DEGs) for patients with serous epithelial OC, with or without LI, who did or did not survive for 5 years.
  
  
  METHODS
  Gene expression data from 63 patients with OC and LI, and 35 patients with OC but without LI, were investigated using an Affymetrix Human Genome U133 Array and analyzed using The Cancer Genome Atlas (TCGA) database. Among these 98 patients, 16 survived for 5 years or more. DEGs were identified using the Bioconductor R package, and their functions were analyzed using the DAVID web tool.
  
  
  RESULTS
  We found 55 significant DEGs (p<0.01) from the patients with LI and 20 highly significant DEGs (p<0.001) from those without it. Pathway analysis showed that DEGs associated with carbohydrate metabolism or with renal cell carcinoma pathways were enriched in the patients with and without LI, respectively. Using the top five prognostic marker genes, we generated survival scores that could be used to predict the 5-year survival of patients with OC without LI.
  
  
  CONCLUSIONS
  The DEGs identified in this study could be used to elucidate the mechanism of tumor progression and to guide the prognosis and treatment of patients with serous OC but without LI.
authors.affiliation: Department of Biomedical Sciences, Seoul National University Graduate School, Seoul, Korea.
authors.forename: San Duk
authors.initials: SD
authors.lastname: Yang
authors.affiliation: Department of Biomedical Sciences, Seoul National University Graduate School, Seoul, Korea.
authors.forename: Se Song
authors.initials: SS
authors.lastname: Jang
authors.affiliation: Department of Biochemistry and Molecular Biology, Kangwon National University School of Medicine, Chuncheon, Korea.
authors.forename: Jeong A
authors.initials: JA
authors.lastname: Han
authors.affiliation: Center for Convergence Research of Advanced Technologies, Ewha Womans University, Seoul, Korea.
authors.forename: Hyun Seok
authors.initials: HS
authors.lastname: Park
authors.affiliation: Department of Biomedical Sciences, Seoul National University Graduate School, Seoul, Korea.|Genomic Medicine Institute, Medical Research Center, Seoul National University, Seoul, Korea.|Cancer Research Institute, Seoul National University, Seoul, Korea. jongil@snu.ac.kr.
authors.forename: Jong Il
authors.initials: JI
authors.lastname: Kim
mesh_terms: D018284:Cystadenocarcinoma, Serous / Q000235:genetics* / Q000401:mortality* / Q000473:pathology; D030541:Databases, Genetic; D005260:Female; D015972:Gene Expression Regulation, Neoplastic; D006801:Humans; D046228:Microarray Analysis; D008875:Middle Aged; D010051:Ovarian Neoplasms / Q000235:genetics* / Q000401:mortality* / Q000473:pathology; D011379:Prognosis; D012044:Regression Analysis; D012189:Retrospective Studies; D015996:Survival Rate
keywords: Gene expression; microarray analysis; ovarian cancer; prognosis