GELBANK: a database of annotated two-dimensional gel electrophoresis patterns of biological systems with completed genomes
GELBANK: a database of annotated two-dimensional gel electrophoresis patterns of biological systems with completed genomes
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DOI：
10.1093/nar/gkh089
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发表时间：
2004-01-01
影响因子：
14.9
通讯作者：
Giometti, CS
中科院分区：
文献类型：
--
作者：
Babnigg, G;Giometti, CS
GELBANK是来自具有已知基因组信息的生物体的蛋白质组的二维凝胶电泳（2DE）凝胶模式的公开可用数据库（可在http://gelbank.anl.gov和ftp：//bioinformatics.ani.gov/gelbank/获得）。目前，它包括131个已完成的，主要是微生物蛋白质组可从国家生物技术信息中心。一个网络界面允许注册用户上传2D凝胶模式及其注释。图像按种属、组织类型、分离方法、样本类型和染色方法组织。可以基于蛋白质或2DE模式属性查询数据库。网络界面允许注册用户将分子量和pH梯度分布分配给他们自己的2D凝胶模式，并将蛋白质鉴定链接到模式上的给定点。该网站展示了所有提交的2D凝胶模式，最终用户可以动态显示图像或图像的部分沿着分子量、pH分布信息和相关蛋白质鉴定。可以选择一组图像来创建动画，用户可以从中选择感兴趣的子区域和无限的2D凝胶图案进行可视化。该网站目前提供了233个鉴定，用于智人、詹氏甲烷球菌、激烈火球菌、奥奈希瓦氏菌、大肠杆菌和耐辐射异常球菌的81种凝胶模式。
GELBANK is a publicly available database of two-dimensional gel electrophoresis (2DE) gel patterns of proteomes from organisms with known genome information (available at http://gelbank.anl.gov and ftp://bioinformatics.ani.gov/gelbank/). Currently it includes 131 completed, mostly microbial proteomes available from the National Center for Biotechnology Information. A web interface allows the upload of 2D gel patterns and their annotation for registered users. The images are organized by species, tissue type, separation method, sample type and staining method. The database can be queried based on protein or 2DE-pattern attributes. A web interface allows registered users to assign molecular weight and pH gradient profiles to their own 2D gel patterns as well as to link protein identifications to a given spot on the pattern. The website presents all of the submitted 2D gel patterns where the end-user can dynamically display the images or parts of images along with molecular weight, pH profile information and linked protein identification. A collection of images can be selected for the creation of animations from which the user can select sub-regions of interest and unlimited 2D gel patterns for visualization. The website currently presents 233 identifications for 81 gel patterns for Homo sapiens, Methanococcus jannaschii, Pyrococcus furiosus, Shewanella oneidensis, Escherichia coli and Deinococcus radiodurans.