title: Identifying joint biomarker panel from multiple level dataset by an optimization model.
abstract: Joint biomarker panel takes advantage of coherence across multiple level datasets and holds the promise to improve disease diagnosis accuracy.
  
  
  
  We collected 101 colorectal cancer and 95 benign samples, measured the molecular concentrations by serum assays and mass spectra, and developed LPGLO (Linear Programming based on Group Lasso Optimization) to identify the joint biomarker panel.
  
  
  
  A joint biomarker panel, with ten serum biomarkers and six mass spectra peaks, achieves LOOCV accuracy 0.8724, which is better than the optimal panels identified from separate datasets (LOOCV = 0.7551 for mass spectra only or 0.8265 for serum assay only) and the simply merged dataset (LOOCV = 0.8622).
  
  
  
  LPGLO is useful to identify joint biomarker panel to help tumor diagnosis.
authors.affiliation: National Center for Mathematics & Interdisciplinary Sciences, Academy of Mathematics & Systems Science, Chinese Academy of Sciences, Beijing 100080, China.
authors.forename: Meng
authors.initials: M
authors.lastname: Zou
authors.affiliation: Core Laboratory of Translational Medicine, State Key Laboratory of Kidney Disease, Chinese PLA General Hospital, Beijing, 100853, China.
authors.forename: Peng-Jun
authors.initials: PJ
authors.lastname: Zhang
authors.affiliation: Key Laboratory of Systems Biology, Innovation Center for Cell Signaling Network, Institute of Biochemistry & Cell Biology, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, Shanghai 200233, China.
authors.forename: Luonan
authors.initials: L
authors.lastname: Chen
authors.affiliation: Core Laboratory of Translational Medicine, State Key Laboratory of Kidney Disease, Chinese PLA General Hospital, Beijing, 100853, China.
authors.forename: Ya-Ping
authors.initials: YP
authors.lastname: Tian
authors.affiliation: National Center for Mathematics & Interdisciplinary Sciences, Academy of Mathematics & Systems Science, Chinese Academy of Sciences, Beijing 100080, China.
authors.forename: Yong
authors.initials: Y
authors.lastname: Wang
mesh_terms: D014408:Biomarkers, Tumor / Q000097:blood*; D003106:Colon / Q000378:metabolism / Q000473:pathology; D015179:Colorectal Neoplasms / Q000175:diagnosis* / Q000473:pathology; D006801:Humans; D016015:Logistic Models; D008962:Models, Theoretical; D019032:Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization; D060388:Support Vector Machine
chemical_list: D014408:Biomarkers, Tumor
keywords: group lasso optimization; joint biomarker panel; multiple level dataset