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生物通用互作数据库(BioGRID):一个用于研究酵母中生物相互作用的资源库。

BioGRID: A Resource for Studying Biological Interactions in Yeast.

作者信息

Oughtred Rose, Chatr-aryamontri Andrew, Breitkreutz Bobby-Joe, Chang Christie S, Rust Jennifer M, Theesfeld Chandra L, Heinicke Sven, Breitkreutz Ashton, Chen Daici, Hirschman Jodi, Kolas Nadine, Livstone Michael S, Nixon Julie, O'Donnell Lara, Ramage Lindsay, Winter Andrew, Reguly Teresa, Sellam Adnane, Stark Chris, Boucher Lorrie, Dolinski Kara, Tyers Mike

机构信息

Lewis-Sigler Institute for Integrative Genomics, Princeton University, Princeton, New Jersey 08544;

Institute for Research in Immunology and Cancer, Université de Montréal, Montréal, Québec H3C 3J7, Canada;

出版信息

Cold Spring Harb Protoc. 2016 Jan 4;2016(1):pdb.top080754. doi: 10.1101/pdb.top080754.

Abstract

The Biological General Repository for Interaction Datasets (BioGRID) is a freely available public database that provides the biological and biomedical research communities with curated protein and genetic interaction data. Structured experimental evidence codes, an intuitive search interface, and visualization tools enable the discovery of individual gene, protein, or biological network function. BioGRID houses interaction data for the major model organism species--including yeast, nematode, fly, zebrafish, mouse, and human--with particular emphasis on the budding yeast Saccharomyces cerevisiae and the fission yeast Schizosaccharomyces pombe as pioneer eukaryotic models for network biology. BioGRID has achieved comprehensive curation coverage of the entire literature for these two major yeast models, which is actively maintained through monthly curation updates. As of September 2015, BioGRID houses approximately 335,400 biological interactions for budding yeast and approximately 67,800 interactions for fission yeast. BioGRID also supports an integrated posttranslational modification (PTM) viewer that incorporates more than 20,100 yeast phosphorylation sites curated through its sister database, the PhosphoGRID.

摘要

生物相互作用数据集通用知识库(BioGRID)是一个免费的公共数据库,为生物学和生物医学研究团体提供经过整理的蛋白质和基因相互作用数据。结构化的实验证据代码、直观的搜索界面和可视化工具有助于发现单个基因、蛋白质或生物网络的功能。BioGRID存储了主要模式生物物种的相互作用数据,包括酵母、线虫、果蝇、斑马鱼、小鼠和人类,特别侧重于将出芽酵母酿酒酵母和裂殖酵母粟酒裂殖酵母作为网络生物学的先驱真核模式生物。BioGRID已实现对这两种主要酵母模式的全部文献进行全面整理,通过每月的整理更新积极维护。截至2015年9月,BioGRID存储了约335,400个出芽酵母的生物相互作用和约67,800个裂殖酵母的相互作用。BioGRID还支持一个整合的翻译后修饰(PTM)查看器,该查看器纳入了通过其姊妹数据库PhosphoGRID整理的超过20,100个酵母磷酸化位点。

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