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The BioGRID database: A comprehensive biomedical resource of curated protein, genetic, and chemical interactions
Protein Science ( IF 8 ) Pub Date : 2020-10-18 , DOI: 10.1002/pro.3978
Rose Oughtred 1 , Jennifer Rust 1 , Christie Chang 1 , Bobby-Joe Breitkreutz 2 , Chris Stark 2 , Andrew Willems 2 , Lorrie Boucher 2 , Genie Leung 2 , Nadine Kolas 2 , Frederick Zhang 3 , Sonam Dolma 3 , Jasmin Coulombe-Huntington 4 , Andrew Chatr-Aryamontri 4 , Kara Dolinski 1 , Mike Tyers 2, 4
Affiliation  

The BioGRID (Biological General Repository for Interaction Datasets, thebiogrid.org) is an open‐access database resource that houses manually curated protein and genetic interactions from multiple species including yeast, worm, fly, mouse, and human. The ~1.93 million curated interactions in BioGRID can be used to build complex networks to facilitate biomedical discoveries, particularly as related to human health and disease. All BioGRID content is curated from primary experimental evidence in the biomedical literature, and includes both focused low‐throughput studies and large high‐throughput datasets. BioGRID also captures protein post‐translational modifications and protein or gene interactions with bioactive small molecules including many known drugs. A built‐in network visualization tool combines all annotations and allows users to generate network graphs of protein, genetic and chemical interactions. In addition to general curation across species, BioGRID undertakes themed curation projects in specific aspects of cellular regulation, for example the ubiquitin‐proteasome system, as well as specific disease areas, such as for the SARS‐CoV‐2 virus that causes COVID‐19 severe acute respiratory syndrome. A recent extension of BioGRID, named the Open Repository of CRISPR Screens (ORCS, orcs.thebiogrid.org), captures single mutant phenotypes and genetic interactions from published high throughput genome‐wide CRISPR/Cas9‐based genetic screens. BioGRID‐ORCS contains datasets for over 1,042 CRISPR screens carried out to date in human, mouse and fly cell lines. The biomedical research community can freely access all BioGRID data through the web interface, standardized file downloads, or via model organism databases and partner meta‐databases.

中文翻译:

BioGRID 数据库:精选蛋白质、遗传和化学相互作用的综合生物医学资源

BioGRID(交互数据集生物通用存储库,thebiogrid.org)是一个开放访问数据库资源,其中包含来自酵母、蠕虫、苍蝇、小鼠和人类等多个物种的手动管理的蛋白质和遗传相互作用。BioGRID 中约 193 万个精心策划的交互可用于构建复杂的网络,以促进生物医学发现,特别是与人类健康和疾病相关的发现。所有 BioGRID 内容均根据生物医学文献中的主要实验证据整理而成,包括重点低通量研究和大型高通量数据集。BioGRID 还捕获蛋白质翻译后修饰以及蛋白质或基因与生物活性小分子(包括许多已知药物)的相互作用。内置的网络可视化工具结合了所有注释,并允许用户生成蛋白质、遗传和化学相互作用的网络图。除了跨物种的一般管理外,BioGRID 还在细胞调节的特定方面(例如泛素-蛋白酶体系统)以及特定疾病领域(例如导致 COVID-19 的 SARS-CoV-2 病毒)开展主题管理项目严重急性呼吸道综合症。BioGRID 最近的一个扩展名为 CRISPR 筛选开放存储库(ORCS,orcs.thebiogrid.org),从已发表的高通量全基因组 CRISPR/Cas9 遗传筛选中捕获单突变表型和遗传相互作用。BioGRID-ORCS 包含迄今为止在人类、小鼠和果蝇细胞系中进行的超过 1,042 次 CRISPR 筛选的数据集。生物医学研究界可以通过网络界面、标准化文件下载或通过模型生物数据库和合作伙伴元数据库自由访问所有 BioGRID 数据。
更新日期:2020-12-15
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