AtPID: Arabidopsis thaliana protein interactome database--an integrative platform for plant systems biology.
AtPID: Arabidopsis thaliana protein interactome database--an integrative platform for plant systems biology.
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DOI：
10.1093/nar/gkm844
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发表时间：
2008-01
影响因子：
14.9
通讯作者：
Shi, Tieliu
中科院分区：
文献类型：
--
作者：
Cui, Jian;Li, Peng;Li, Guang;Xu, Feng;Zhao, Chen;Li, Yuhua;Yang, Zhongnan;Wang, Guang;Yu, Qingbo;Li, Yixue;Shi, Tieliu
拟南芥蛋白质互作组数据库是一个对象数据库，它集成了多种生物信息学预测方法的数据，并从文献中手动收集信息。它包含与蛋白质-蛋白质相互作用、蛋白质亚细胞位置、同源图谱、结构域属性和基因调控相关的数据。预测的蛋白质相互作用数据来自于同源互作组、微阵列图谱、GO注释以及保守的结构域和基因组上下文。这个数据库保存了28062个蛋白质相互作用对，其中23396个蛋白质相互作用对由预测方法产生。在其余的4666对中，3866对来自文献，涉及1875个蛋白质，800对来自KEGG中的酶复合体。此外，5562个蛋白质的亚细胞位置信息也是可用的。AtPID是通过一个直观的查询界面构建的，该界面提供了对蛋白质重要功能的轻松访问。通过将实验和计算方法结合在一起，AtPID为系统水平了解拟南芥的基因功能和生物学过程提供了丰富的信息来源。公众可在http://atpid.biosino.org/.上访问ATPID数据库
Arabidopsis thaliana Protein Interactome Database (AtPID) is an object database that integrates data from several bioinformatics prediction methods and manually collected information from the literature. It contains data relevant to protein–protein interaction, protein subcellular location, ortholog maps, domain attributes and gene regulation. The predicted protein interaction data were obtained from ortholog interactome, microarray profiles, GO annotation, and conserved domain and genome contexts. This database holds 28 062 protein–protein interaction pairs with 23 396 pairs generated from prediction methods. Among the rest 4666 pairs, 3866 pairs of them involving 1875 proteins were manually curated from the literature and 800 pairs were from enzyme complexes in KEGG. In addition, subcellular location information of 5562 proteins is available. AtPID was built via an intuitive query interface that provides easy access to the important features of proteins. Through the incorporation of both experimental and computational methods, AtPID is a rich source of information for system-level understanding of gene function and biological processes in A. thaliana. Public access to the AtPID database is available at http://atpid.biosino.org/.
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作者：
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