title: The knowledge-integrated network biomarkers discovery for major adverse cardiac events.
abstract: The mass spectrometry (MS) technology in clinical proteomics is very promising for discovery of new biomarkers for diseases management. To overcome the obstacles of data noises in MS analysis, we proposed a new approach of knowledge-integrated biomarker discovery using data from Major Adverse Cardiac Events (MACE) patients. We first built up a cardiovascular-related network based on protein information coming from protein annotations in Uniprot, protein-protein interaction (PPI), and signal transduction database. Distinct from the previous machine learning methods in MS data processing, we then used statistical methods to discover biomarkers in cardiovascular-related network. Through the tradeoff between known protein information and data noises in mass spectrometry data, we finally could firmly identify those high-confident biomarkers. Most importantly, aided by protein-protein interaction network, that is, cardiovascular-related network, we proposed a new type of biomarkers, that is, network biomarkers, composed of a set of proteins and the interactions among them. The candidate network biomarkers can classify the two groups of patients more accurately than current single ones without consideration of biological molecular interaction.
authors.affiliation: Center for Biotechnology and Informatics, The Methodist Hospital Research Institute & Cornell University, Houston, Texas 77030, USA.
authors.forename: Guangxu
authors.initials: G
authors.lastname: Jin
authors.forename: Xiaobo
authors.initials: X
authors.lastname: Zhou
authors.forename: Honghui
authors.initials: H
authors.lastname: Wang
authors.forename: Hong
authors.initials: H
authors.lastname: Zhao
authors.forename: Kemi
authors.initials: K
authors.lastname: Cui
authors.forename: Xiang-Sun
authors.initials: XS
authors.lastname: Zhang
authors.forename: Luonan
authors.initials: L
authors.lastname: Chen
authors.forename: Stanley L
authors.initials: SL
authors.lastname: Hazen
authors.forename: King
authors.initials: K
authors.lastname: Li
authors.forename: Stephen T C
authors.initials: ST
authors.lastname: Wong
mesh_terms: D015415:Biomarkers / Q000378:metabolism*; D002318:Cardiovascular Diseases / Q000175:diagnosis*; D006801:Humans; D013058:Mass Spectrometry; D049490:Systems Biology
chemical_list: D015415:Biomarkers