使用PRIDE数据库和ProteomeXchange提交和访问公共蛋白质组学数据集

Q1 Biochemistry, Genetics and Molecular Biology

Current protocols in bioinformatics Pub Date : 2018-02-13 DOI:10.1002/cpbi.30

Andrew F. Jarnuczak, Juan Antonio Vizcaíno

{"title":"使用PRIDE数据库和ProteomeXchange提交和访问公共蛋白质组学数据集","authors":"Andrew F. Jarnuczak, Juan Antonio Vizcaíno","doi":"10.1002/cpbi.30","DOIUrl":null,"url":null,"abstract":"<p>The ProteomeXchange (PX) Consortium is the unifying framework for world-leading mass spectrometry (MS)–based proteomics repositories. Current members include the PRIDE database (U.K.), PeptideAtlas/PASSEL, and MassIVE (U.S.A.), and jPOST (Japan). The Consortium standardizes submission and dissemination of public proteomics data worldwide. This is achieved through implementing common data submission guidelines and enforcing metadata requirements by each of the members. Furthermore, the members use a common identifier space. Each dataset receives a unique (PXD) accession number and is publicly accessible as soon as the associated scientific publications are released. The two basic protocols provide a step-by-step guide on how to submit data to the PRIDE database, and describe how to access the PX portal (called ProteomeCentral), which can be used to search datasets available in any of the PX members. © 2017 by John Wiley & Sons, Inc.</p>","PeriodicalId":10958,"journal":{"name":"Current protocols in bioinformatics","volume":"59 1","pages":""},"PeriodicalIF":0.0000,"publicationDate":"2018-02-13","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1002/cpbi.30","citationCount":"39","resultStr":"{\"title\":\"Using the PRIDE Database and ProteomeXchange for Submitting and Accessing Public Proteomics Datasets\",\"authors\":\"Andrew F. Jarnuczak, Juan Antonio Vizcaíno\",\"doi\":\"10.1002/cpbi.30\",\"DOIUrl\":null,\"url\":null,\"abstract\":\"<p>The ProteomeXchange (PX) Consortium is the unifying framework for world-leading mass spectrometry (MS)–based proteomics repositories. Current members include the PRIDE database (U.K.), PeptideAtlas/PASSEL, and MassIVE (U.S.A.), and jPOST (Japan). The Consortium standardizes submission and dissemination of public proteomics data worldwide. This is achieved through implementing common data submission guidelines and enforcing metadata requirements by each of the members. Furthermore, the members use a common identifier space. Each dataset receives a unique (PXD) accession number and is publicly accessible as soon as the associated scientific publications are released. The two basic protocols provide a step-by-step guide on how to submit data to the PRIDE database, and describe how to access the PX portal (called ProteomeCentral), which can be used to search datasets available in any of the PX members. © 2017 by John Wiley & Sons, Inc.</p>\",\"PeriodicalId\":10958,\"journal\":{\"name\":\"Current protocols in bioinformatics\",\"volume\":\"59 1\",\"pages\":\"\"},\"PeriodicalIF\":0.0000,\"publicationDate\":\"2018-02-13\",\"publicationTypes\":\"Journal Article\",\"fieldsOfStudy\":null,\"isOpenAccess\":false,\"openAccessPdf\":\"https://sci-hub-pdf.com/10.1002/cpbi.30\",\"citationCount\":\"39\",\"resultStr\":null,\"platform\":\"Semanticscholar\",\"paperid\":null,\"PeriodicalName\":\"Current protocols in bioinformatics\",\"FirstCategoryId\":\"1085\",\"ListUrlMain\":\"https://onlinelibrary.wiley.com/doi/10.1002/cpbi.30\",\"RegionNum\":0,\"RegionCategory\":null,\"ArticlePicture\":[],\"TitleCN\":null,\"AbstractTextCN\":null,\"PMCID\":null,\"EPubDate\":\"\",\"PubModel\":\"\",\"JCR\":\"Q1\",\"JCRName\":\"Biochemistry, Genetics and Molecular Biology\",\"Score\":null,\"Total\":0}","platform":"Semanticscholar","paperid":null,"PeriodicalName":"Current protocols in bioinformatics","FirstCategoryId":"1085","ListUrlMain":"https://onlinelibrary.wiley.com/doi/10.1002/cpbi.30","RegionNum":0,"RegionCategory":null,"ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":null,"EPubDate":"","PubModel":"","JCR":"Q1","JCRName":"Biochemistry, Genetics and Molecular Biology","Score":null,"Total":0}

引用次数: 39

摘要

ProteomeXchange (PX)联盟是世界领先的基于质谱(MS)的蛋白质组学资源库的统一框架。目前的成员包括PRIDE数据库(英国)、PeptideAtlas/PASSEL、MassIVE(美国)和jPOST(日本)。该联盟标准化提交和传播全球公共蛋白质组学数据。这是通过实现公共数据提交指南和每个成员强制执行元数据需求来实现的。此外，成员使用一个公共标识符空间。每个数据集都有一个唯一的(PXD)登录号，一旦相关的科学出版物发布，就可以公开访问。这两个基本协议提供了如何向PRIDE数据库提交数据的分步指南，并描述了如何访问PX门户(称为ProteomeCentral)，该门户可用于搜索任何PX成员中可用的数据集。©2017 by John Wiley &儿子,Inc。

本文章由计算机程序翻译，如有差异，请以英文原文为准。

查看原文本刊更多论文

Using the PRIDE Database and ProteomeXchange for Submitting and Accessing Public Proteomics Datasets

The ProteomeXchange (PX) Consortium is the unifying framework for world-leading mass spectrometry (MS)–based proteomics repositories. Current members include the PRIDE database (U.K.), PeptideAtlas/PASSEL, and MassIVE (U.S.A.), and jPOST (Japan). The Consortium standardizes submission and dissemination of public proteomics data worldwide. This is achieved through implementing common data submission guidelines and enforcing metadata requirements by each of the members. Furthermore, the members use a common identifier space. Each dataset receives a unique (PXD) accession number and is publicly accessible as soon as the associated scientific publications are released. The two basic protocols provide a step-by-step guide on how to submit data to the PRIDE database, and describe how to access the PX portal (called ProteomeCentral), which can be used to search datasets available in any of the PX members. © 2017 by John Wiley & Sons, Inc.

求助全文

通过发布文献求助，成功后即可免费获取论文全文。去求助

来源期刊

Current protocols in bioinformatics Biochemistry, Genetics and Molecular Biology-Biochemistry

自引率

0.00%

发文量

期刊介绍： With Current Protocols in Bioinformatics, it"s easier than ever for the life scientist to become "fluent" in bioinformatics and master the exciting new frontiers opened up by DNA sequencing. Updated every three months in all formats, CPBI is constantly evolving to keep pace with the very latest discoveries and developments.