UniProt 知识库的快速肽段匹配服务。
A fast Peptide Match service for UniProt Knowledgebase.
机构信息
Center for Bioinformatics and Computational Biology and Protein Information Resource, University of Delaware, Newark, DE 19711, USA, Protein Information Resource, Georgetown University Medical Center, Washington, DC 20007, USA, European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SD, UK and Swiss Institute of Bioinformatics, Centre Medical Universitaire, 1211 Geneva 4, Switzerland.
出版信息
Bioinformatics. 2013 Nov 1;29(21):2808-9. doi: 10.1093/bioinformatics/btt484. Epub 2013 Aug 19.
SUMMARY
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.
AVAILABILITY
http://proteininformationresource.org/peptide.shtml.
CONTACT
SUPPLEMENTARY INFORMATION
Supplementary data are available at Bioinformatics online.
摘要
我们开发了一个新的基于 Apache Lucene 的网络应用程序，用于进行肽段匹配。Peptide Match 服务旨在从包含同种型的 UniProt Knowledgebase（UniProtKB）中快速检索给定查询肽段的所有出现。匹配的蛋白质以带有丰富注释的摘要表形式显示，包括匹配的序列区域以及到多个蛋白质组学/肽谱数据库中对应蛋白质的链接。结果按分类学分组，可按生物体、分类群或分类树浏览。该服务支持将等电点亮氨酸和异亮氨酸视为等同的查询，并提供搜索 UniRef100 代表序列的选项，以及对主要蛋白质组学数据库的动态查询。除了网络界面，我们还提供了 RESTful Web 服务。底层数据每 4 周根据 UniProt 的发布进行更新。
可用性
http://proteininformationresource.org/peptide.shtml。
联系人
补充信息
补充数据可在 Bioinformatics 在线获得。
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