Comprehensive identification of peptides in tandem mass spectra using an efficient open search engine

被引：252

作者：

Chi, Hao ^{[1
,2
]}

Liu, Chao ^{[1
,2
]}

Yang, Hao ^{[1
,2
]}

Zeng, Wen-Feng ^{[1
,2
]}

Wu, Long ^{[1
,2
]}

Zhou, Wen-Jing ^{[1
,2
]}

Wang, Rui-Min ^{[1
,2
]}

Niu, Xiu-Nan ^{[1
,2
]}

Ding, Yue-He ^{[3
]}

Zhang, Yao ^{[4
,5
,6
]}

Wang, Zhao-Wei ^{[1
,2
]}

Chen, Zhen-Lin ^{[1
,2
]}

Sun, Rui-Xiang ^{[1
,2
]}

Liu, Tao ^{[1
]}

Tan, Guang-Ming ^{[1
]}

Dong, Meng-Qiu ^{[3
]}

Xu, Ping ^{[4
]}

Zhang, Pei-Heng ^{[1
]}

He, Si-Min ^{[1
,2
]}

机构：

[1] Chinese Acad Sci, Key Lab Intelligent Informat Proc, Inst Comp Technol, Beijing, Peoples R China

[2] Univ Chinese Acad Sci, Beijing, Peoples R China

[3] Natl Inst Biol Sci, Beijing, Peoples R China

[4] Beijing Inst Life, Natl Ctr Prot Sci Beijing, Beijing Proteome Res Ctr, State Key Lab Prote, Beijing, Peoples R China

[5] Sun Yat Sen Univ, Coll Ecol & Evolut, State Key Lab Biocontrol, Guangzhou, Guangdong, Peoples R China

[6] Sun Yat Sen Univ, Coll Ecol & Evolut, Guangdong Prov Key Lab Plant Resources, Guangzhou, Guangdong, Peoples R China

来源：

NATURE BIOTECHNOLOGY | 2018年 / 36卷 / 11期

基金：

中国国家自然科学基金;

关键词：

SHOTGUN PROTEOMICS DATASETS; PROTEIN IDENTIFICATION; DATA SETS; SPECTROMETRY; DATABASE; QUANTIFICATION; SEQUENCES; ACCURACY; RATIOS; RATES;

D O I：

10.1038/nbt.4236

中图分类号：

Q81 [生物工程学（生物技术）]; Q93 [微生物学];

学科分类号：

071005 ; 0836 ; 090102 ; 100705 ;

摘要：

We present a sequence-tag-based search engine, Open-pFind, to identify peptides in an ultra-large search space that includes coeluting peptides, unexpected modifications and digestions. Our method detects peptides with higher precision and speed than seven other search engines. Open-pFind identified 70-85% of the tandem mass spectra in four large-scale datasets and 14,064 proteins, each supported by at least two protein-unique peptides, in a human proteome dataset.

引用

页码：1059 / +

页数：6

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