A novel scoring schema for peptide identification by searching protein sequence databases using tandem mass spectrometry data | |
Zhang, Z; Sun, SW; Zhu, XP; Chang, SH; Liu, XF; Yu, CG; Bu, DB; Chen, RS | |
刊名 | BMC BIOINFORMATICS
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2006-04-26 | |
卷号 | 7页码:8 |
关键词 | t |
ISSN号 | 1471-2105 |
DOI | 10.1186/1471-2105-7-222 |
英文摘要 | Background: Tandem mass spectrometry ( MS/ MS) is a powerful tool for protein identification. Although great efforts have been made in scoring the correlation between tandem mass spectra and an amino acid sequence database, improvements could be made in three aspects, including characterization ofpeaks in spectra, adoption of effective scoring functions and access to thereliability of matching between peptides and spectra. Results: A novel scoring function is presented, along with criteria to estimate the performance confidence of the function. Through learning the typesof product ions and the probability of generating them, a hypothetic spectrum was generated for each candidate peptide. Then relative entropy was introduced to measure the similarity between the hypothetic and the observed spectra. Based on the extreme value distribution ( EVD) theory, a threshold was chosen to distinguish a true peptide assignment from a random one. Tests on a public MS/ MS dataset demonstrated that this method performs better than the well-known SEQUEST. Conclusion: A reliable identification of proteins from the spectra promises a more efficient application of tandem mass spectrometry to proteomes with high complexity. |
WOS研究方向 | Biochemistry & Molecular Biology ; Biotechnology & Applied Microbiology ; Mathematical & Computational Biology |
语种 | 英语 |
出版者 | BIOMED CENTRAL LTD |
WOS记录号 | WOS:000237641500001 |
内容类型 | 期刊论文 |
源URL | [http://119.78.100.204/handle/2XEOYT63/10756] ![]() |
专题 | 中国科学院计算技术研究所期刊论文_英文 |
通讯作者 | Bu, DB |
作者单位 | 1.Chinese Acad Sci, Inst Comp Technol, Beijing, Peoples R China 2.Chinese Acad Sci, Inst Biophys, Beijing 100080, Peoples R China |
推荐引用方式 GB/T 7714 | Zhang, Z,Sun, SW,Zhu, XP,et al. A novel scoring schema for peptide identification by searching protein sequence databases using tandem mass spectrometry data[J]. BMC BIOINFORMATICS,2006,7:8. |
APA | Zhang, Z.,Sun, SW.,Zhu, XP.,Chang, SH.,Liu, XF.,...&Chen, RS.(2006).A novel scoring schema for peptide identification by searching protein sequence databases using tandem mass spectrometry data.BMC BIOINFORMATICS,7,8. |
MLA | Zhang, Z,et al."A novel scoring schema for peptide identification by searching protein sequence databases using tandem mass spectrometry data".BMC BIOINFORMATICS 7(2006):8. |
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