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苏提维基(SubtiWiki),枯草芽孢杆菌模式生物数据库的现状。

The current state of SubtiWiki, the database for the model organism Bacillus subtilis.

机构信息

Department of General Microbiology, Institute of Microbiology and Genetics, Georg August University of Göttingen, Grisebachstr. 8, D-37077 Göttingen, Germany.

出版信息

Nucleic Acids Res. 2022 Jan 7;50(D1):D875-D882. doi: 10.1093/nar/gkab943.

Abstract

Bacillus subtilis is a Gram-positive model bacterium with extensive documented annotation. However, with the rise of high-throughput techniques, the amount of complex data being generated every year has been increasing at a fast pace. Thus, having platforms ready to integrate and give a representation to these data becomes a priority. To address it, SubtiWiki (http://subtiwiki.uni-goettingen.de/) was created in 2008 and has been growing in data and viewership ever since. With millions of requests every year, it is the most visited B. subtilis database, providing scientists all over the world with curated information about its genes and proteins, as well as intricate protein-protein interactions, regulatory elements, expression data and metabolic pathways. However, there is still a large portion of annotation to be unveiled for some biological elements. Thus, to facilitate the development of new hypotheses for research, we have added a Homology section covering potential protein homologs in other organisms. Here, we present the recent developments of SubtiWiki and give a guided tour of our database and the current state of the data for this organism.

摘要

枯草芽孢杆菌是一种革兰氏阳性模式细菌,其相关注释已得到广泛的记录。然而,随着高通量技术的兴起,每年生成的复杂数据量呈快速增长。因此,拥有可以整合和呈现这些数据的平台成为当务之急。为了解决这个问题,SubtiWiki(http://subtiwiki.uni-goettingen.de/)于 2008 年创建,自那时以来,其数据和访问量一直在不断增长。每年有上百万次的请求,它是访问量最大的枯草芽孢杆菌数据库,为世界各地的科学家提供了关于其基因和蛋白质的精选信息,以及复杂的蛋白质-蛋白质相互作用、调控元件、表达数据和代谢途径。然而,对于一些生物元素,仍有很大一部分注释有待揭示。因此,为了促进研究新假设的发展,我们增加了一个同源性部分,涵盖了其他生物体中潜在的蛋白质同源物。在这里,我们介绍了 SubtiWiki 的最新进展,并对我们的数据库进行了指导,展示了该生物体的数据现状。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/f5cd/8728116/5e1734fa5d8f/gkab943fig1.jpg

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