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题名: A modified k-TSP algorithm and its application in LC-MS-based metabolomics study of hepatocellular carcinoma and chronic liver diseases
作者: Lin, Xiaohui1;  Gao, Jiuchong1;  Zhou, Lina2;  Yin, Peiyuan2;  Xu, Guowang2
关键词: TSP ;  Metabolomics ;  Liver diseases ;  Feature selection ;  Top scoring pairs ;  LC-MS
刊名: JOURNAL OF CHROMATOGRAPHY B-ANALYTICAL TECHNOLOGIES IN THE BIOMEDICAL AND LIFE SCIENCES
发表日期: 2014-09-01
DOI: 10.1016/j.jchromb.2014.05.044
卷: 966, 页:100-108
收录类别: SCI
文章类型: Article
WOS标题词: Science & Technology ;  Life Sciences & Biomedicine ;  Physical Sciences
类目[WOS]: Biochemical Research Methods ;  Chemistry, Analytical
研究领域[WOS]: Biochemistry & Molecular Biology ;  Chemistry
英文摘要: In systems biology, the ability to discern meaningful information that reflects the nature of related problems from large amounts of data has become a key issue. The classification method using top scoring pairs (TSP), which measures the features of a data set in pairs and selects the top ranked feature pairs to construct the classifier, has been a powerful tool in genomics data analysis because of its simplicity and interpretability. This study examined the relationship between two features, modified the ranking criteria of the k-TSP method to measure the discriminative ability of each feature pair more accurately, and correspondingly, provided an improved classification procedure. Tests on eight public data sets showed the validity of the modified method. This modified k-TSP method was applied to our serum metabolomics data derived from liquid chromatography-mass spectrometry analysis of hepatocellular carcinoma and chronic liver diseases. Based on the 27 selected feature pairs, HCC and chronic liver diseases were accurately distinguished using the principal component analysis, and certain profound metabolic disturbances related to liver disease development were revealed by the feature pairs. (C) 2014 Elsevier B.V. All rights reserved.
关键词[WOS]: FEATURE-SELECTION ;  BIOMARKER DISCOVERY ;  CANCER ;  CLASSIFICATION ;  PREDICTION ;  URINE ;  METABOLISM ;  NMR
语种: 英语
WOS记录号: WOS:000340323200012
Citation statistics: 
内容类型: 期刊论文
URI标识: http://cas-ir.dicp.ac.cn/handle/321008/145558
Appears in Collections:中国科学院大连化学物理研究所_期刊论文

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作者单位: 1.Dalian Univ Technol, Sch Comp Sci & Technol, Dalian 116024, Peoples R China
2.Chinese Acad Sci, Dalian Inst Chem Phys, Key Lab Separat Sci Analyt Chem, Dalian 116023, Peoples R China

Recommended Citation:
Lin, Xiaohui,Gao, Jiuchong,Zhou, Lina,et al. A modified k-TSP algorithm and its application in LC-MS-based metabolomics study of hepatocellular carcinoma and chronic liver diseases[J]. JOURNAL OF CHROMATOGRAPHY B-ANALYTICAL TECHNOLOGIES IN THE BIOMEDICAL AND LIFE SCIENCES,2014,966:100-108.
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