title: APPEX: analysis platform for the identification of prognostic gene expression signatures in cancer.
abstract: CONCLUSIONS
  Because cancer has heterogeneous clinical behaviors due to the progressive accumulation of multiple genetic and epigenetic alterations, the identification of robust molecular signatures for predicting cancer outcome is profoundly important. Here, we introduce the APPEX Web-based analysis platform as a versatile tool for identifying prognostic molecular signatures that predict cancer diversity. We incorporated most of statistical methods for survival analysis and implemented seven survival analysis workflows, including CoxSingle, CoxMulti, IntransSingle, IntransMulti, SuperPC, TimeRoc and multivariate. A total of 236 publicly available datasets were collected, processed and stored to support easy independent validation of prognostic signatures. Two case studies including disease recurrence and bladder cancer progression were described using different combinations of the seven workflows.
  
  
  METHODS
  APPEX is freely available at http://www.appex.kr.
  
  
  BACKGROUND
  kimsy@kribb.re.kr
  
  
  BACKGROUND
  Supplementary data are available at Bioinformatics online.
authors.affiliation: Medical Genomics Research Center, Korean Bioinformation Center, Korea Research Institute of Bioscience and Biotechnology, Department of Functional Genomics, University of Science and Technology, Daejeon 305-806, Korea and Department of Urology, Chungbuk National University College of Medicine, Cheongju 360-100, Korea Medical Genomics Research Center, Korean Bioinformation Center, Korea Research Institute of Bioscience and Biotechnology, Department of Functional Genomics, University of Science and Technology, Daejeon 305-806, Korea and Department of Urology, Chungbuk National University College of Medicine, Cheongju 360-100, Korea.
authors.forename: Seon-Kyu
authors.initials: SK
authors.lastname: Kim
authors.affiliation: Medical Genomics Research Center, Korean Bioinformation Center, Korea Research Institute of Bioscience and Biotechnology, Department of Functional Genomics, University of Science and Technology, Daejeon 305-806, Korea and Department of Urology, Chungbuk National University College of Medicine, Cheongju 360-100, Korea Medical Genomics Research Center, Korean Bioinformation Center, Korea Research Institute of Bioscience and Biotechnology, Department of Functional Genomics, University of Science and Technology, Daejeon 305-806, Korea and Department of Urology, Chungbuk National University College of Medicine, Cheongju 360-100, Korea.
authors.forename: Jong
authors.initials: J
authors.lastname: Hwan Kim
authors.affiliation: Medical Genomics Research Center, Korean Bioinformation Center, Korea Research Institute of Bioscience and Biotechnology, Department of Functional Genomics, University of Science and Technology, Daejeon 305-806, Korea and Department of Urology, Chungbuk National University College of Medicine, Cheongju 360-100, Korea.
authors.forename: Seok-Joong
authors.initials: SJ
authors.lastname: Yun
authors.affiliation: Medical Genomics Research Center, Korean Bioinformation Center, Korea Research Institute of Bioscience and Biotechnology, Department of Functional Genomics, University of Science and Technology, Daejeon 305-806, Korea and Department of Urology, Chungbuk National University College of Medicine, Cheongju 360-100, Korea.
authors.forename: Wun-Jae
authors.initials: WJ
authors.lastname: Kim
authors.affiliation: Medical Genomics Research Center, Korean Bioinformation Center, Korea Research Institute of Bioscience and Biotechnology, Department of Functional Genomics, University of Science and Technology, Daejeon 305-806, Korea and Department of Urology, Chungbuk National University College of Medicine, Cheongju 360-100, Korea Medical Genomics Research Center, Korean Bioinformation Center, Korea Research Institute of Bioscience and Biotechnology, Department of Functional Genomics, University of Science and Technology, Daejeon 305-806, Korea and Department of Urology, Chungbuk National University College of Medicine, Cheongju 360-100, Korea.
authors.forename: Seon-Young
authors.initials: SY
authors.lastname: Kim
mesh_terms: D018450:Disease Progression; D020869:Gene Expression Profiling / Q000379:methods*; D023281:Genomics; D006801:Humans; D020407:Internet; D009364:Neoplasm Recurrence, Local; D009369:Neoplasms / Q000235:genetics* / Q000401:mortality*; D011379:Prognosis; D012984:Software; D016019:Survival Analysis; D001749:Urinary Bladder Neoplasms / Q000235:genetics / Q000401:mortality