A fast Peptide Match service for UniProt Knowledgebase

被引：93

作者：

Chen, Chuming ^{[1
]}

Li, Zhiwen ^{[1
]}

Huang, Hongzhan ^{[1
]}

Suzek, Baris E. ^{[2
]}

Wu, Cathy H. ^{[1
,2
]}

机构：

[1] Univ Delaware, Ctr Bioinformat & Computat Biol & Prot Informat R, Newark, DE 19711 USA

[2] Georgetown Univ, Med Ctr, Washington, DC 20007 USA

[3] Ctr Med Univ Geneva, Swiss Inst Bioinformat, CH-1211 Geneva 4, Switzerland

来源：

BIOINFORMATICS | 2013年 / 29卷 / 21期

关键词：

D O I：

10.1093/bioinformatics/btt484

中图分类号：

Q5 [生物化学];

学科分类号：

071010 ; 081704 ;

摘要：

We have developed a new web application for peptide matching using Apache Lucene-based search engine. The Peptide Match service is designed to quickly retrieve all occurrences of a given query peptide from UniProt Knowledgebase (UniProtKB) with isoforms. The matched proteins are shown in summary tables with rich annotations, including matched sequence region(s) and links to corresponding proteins in a number of proteomic/peptide spectral databases. The results are grouped by taxonomy and can be browsed by organism, taxonomic group or taxonomy tree. The service supports queries where isobaric leucine and isoleucine are treated equivalent, and an option for searching UniRef100 representative sequences, as well as dynamic queries to major proteomic databases. In addition to the web interface, we also provide RESTful web services. The underlying data are updated every 4 weeks in accordance with the UniProt releases.

引用

页码：2808 / 2809

页数：2

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