title: dbPHCC: a database of prognostic biomarkers for hepatocellular carcinoma that provides online prognostic modeling.
abstract: Hepatocellular carcinoma (HCC) is one of the most common malignant cancers with a poor prognosis. For decades, more and more biomarkers were found to effect on HCC prognosis, but these studies were scattered and there were no unified identifiers. Therefore, we built the database of prognostic biomarkers and models for hepatocellular carcinoma (dbPHCC).
  
  
  
  dbPHCC focuses on biomarkers which were related to HCC prognosis by traditional experiments rather than high-throughput technology. All of the prognostic biomarkers came from literatures issued during 2002 to 2014 in PubMed and were manually selected. dbPHCC collects comprehensive information of candidate biomarkers and HCC prognosis.
  
  
  
  dbPHCC mainly contains 567 biomarkers: 323 proteins, 154 genes, and 90 microRNAs. For each biomarker, the reference information, experimental conditions, and prognostic information are shown. Based on two available patient cohort data sets, an exemplified prognostic model was constructed using 15 phosphotransferases in dbPHCC. The web interface does not only provide a full range of browsing and searching, but also provides online analysis tools. dbPHCC is available at http://lifecenter.sgst.cn/dbphcc/
  
  
  
  dbPHCC provides a comprehensive and convenient search and analysis platform for HCC prognosis research.
  
  
  
  dbPHCC is the first database to focus on experimentally verified individual biomarkers, which are related to HCC prognosis. Prognostic markers in dbPHCC have the potential to be therapeutic drug targets and may help in designing new treatments to improve survival of HCC patients. This article is part of a Special Issue entitled "System Genetics" Guest Editor: Dr. Yudong Cai and Dr. Tao Huang.
authors.affiliation: Biomedical Engineering, University of Shanghai for Science and Technology, Shanghai 200093, China.
authors.forename: Jian
authors.initials: J
authors.lastname: Ouyang
authors.affiliation: Biomedical Engineering, University of Shanghai for Science and Technology, Shanghai 200093, China. Electronic address: yysyysun@163.com.
authors.forename: Ying
authors.initials: Y
authors.lastname: Sun
authors.affiliation: Shanghai Center for Bioinformation Technology, Shanghai Academy of Science and Technology, Shanghai 201203, China.
authors.forename: Wei
authors.initials: W
authors.lastname: Li
authors.affiliation: Department of Cardiothoracic Surgery, The First Affiliated Hospital of People Libration Army General Hospital, Beijing 100048, China.
authors.forename: Wen
authors.initials: W
authors.lastname: Zhang
authors.affiliation: Biomedical Engineering, University of Shanghai for Science and Technology, Shanghai 200093, China.
authors.forename: Dandan
authors.initials: D
authors.lastname: Wang
authors.affiliation: Biomedical Engineering, University of Shanghai for Science and Technology, Shanghai 200093, China.
authors.forename: Xiangqiong
authors.initials: X
authors.lastname: Liu
authors.affiliation: Biomedical Engineering, University of Shanghai for Science and Technology, Shanghai 200093, China.
authors.forename: Yong
authors.initials: Y
authors.lastname: Lin
authors.affiliation: Shanghai Center for Bioinformation Technology, Shanghai Academy of Science and Technology, Shanghai 201203, China; Shanghai Jiaotong University Affiliated First People's Hospital, Shanghai 200240, China. Electronic address: bflian@scbit.org.
authors.forename: Baofeng
authors.initials: B
authors.lastname: Lian
authors.affiliation: Shanghai Center for Bioinformation Technology, Shanghai Academy of Science and Technology, Shanghai 201203, China. Electronic address: xielu@scbit.org.
authors.forename: Lu
authors.initials: L
authors.lastname: Xie
mesh_terms: D014408:Biomarkers, Tumor / Q000235:genetics*; D006528:Carcinoma, Hepatocellular / Q000235:genetics* / Q000473:pathology*; D016208:Databases, Factual; D015972:Gene Expression Regulation, Neoplastic / Q000235:genetics; D006801:Humans; D008113:Liver Neoplasms / Q000235:genetics* / Q000473:pathology*; D035683:MicroRNAs / Q000235:genetics; D011379:Prognosis
chemical_list: D014408:Biomarkers, Tumor; D035683:MicroRNAs
keywords: Database; Hepatocellular carcinoma; Prognostic biomarkers; Survival analysis