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题名: Instance Based Algorithm for Posterior Probability Calculation by Target-Decoy Strategy to Improve Protein Identifications
作者: Jiang, Xinning1, 2;  Dong, Xiaoli1, 3;  Ye, Mingliang1;  Zou, Hanfa1
通讯作者: 邹汉法
刊名: ANALYTICAL CHEMISTRY
发表日期: 2008-12-01
DOI: 10.1021/ac8017229
卷: 80, 期:23, 页:9326-9335
收录类别: SCI
文章类型: Article
部门归属: 18
项目归属: 1809
产权排名: 1;1
WOS标题词: Science & Technology ;  Physical Sciences
类目[WOS]: Chemistry, Analytical
研究领域[WOS]: Chemistry
英文摘要: The target-decoy database search strategy is often applied to determine the global false-discovery rate (FDR) of peptide identifications in proteome research. However, the confidence of individual peptide identification is typically not determined. In this study, we introduced an approach for the calculation of posterior probability of individual peptide identification from the "local false-discovery rate" (local FDR), which is also determined based on a target-decoy database search. The peptide identification scores output by the database search algorithm were weighted by their discriminating power using a Shannon information entropy based strategy. Then the local FDR of a peptide identification was calculated based on the fraction of decoy identifications among its nearest neighbors within a small space defined by these weighted scores. It was demonstrated that the calculated probability matched the actual probability precisely, and it provided powerful discriminating performance between true positive and false positive identifications. Hence, the sensitivity for peptide identification as well as protein identification was significantly improved when the calculated probability was used to process different proteome data sets. As an instance based strategy, this algorithm provides a safe way for the posterior probability calculation and should work well for datasets with different characteristics.
关键词[WOS]: TANDEM MASS-SPECTROMETRY ;  INDUCED DISSOCIATION SPECTRA ;  PEPTIDE MS/MS SPECTRA ;  NEAREST-NEIGHBOR RULE ;  DATABASE SEARCH ;  STATISTICAL-MODEL ;  SHOTGUN PROTEOMICS ;  YEAST PROTEOME ;  SEQUEST ;  VALIDATION
语种: 英语
原文出处: 查看原文
WOS记录号: WOS:000261335600061
Citation statistics: 
内容类型: 期刊论文
URI标识: http://cas-ir.dicp.ac.cn/handle/321008/100923
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.Chinese Acad Sci, Dalian Inst Chem Phys, Natl Chromatog R&A Ctr, Dalian 116023, Peoples R China
2.Chinese Acad Sci, Grad Sch, Beijing 100049, Peoples R China
3.Zhejiang Univ, Dept Chem, Hangzhou 310028, Peoples R China

Recommended Citation:
Jiang, Xinning,Dong, Xiaoli,Ye, Mingliang,et al. Instance Based Algorithm for Posterior Probability Calculation by Target-Decoy Strategy to Improve Protein Identifications[J]. ANALYTICAL CHEMISTRY,2008,80(23):9326-9335.
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