PPIM: A Protein-Protein Interaction Database for Maize

Guanghui Zhu; Aibo Wu; Xin-Jian Xu; Pei-Pei Xiao; Le Lu; Jingdong Liu; Yongwei Cao; Luonan Chen; Jun Wu; Xing-Ming Zhao

doi:10.1104/pp.15.01821

PPIM: A Protein-Protein Interaction Database for Maize

Plant Physiol. 2016 Feb;170(2):618-26. doi: 10.1104/pp.15.01821. Epub 2015 Nov 30.

Authors

Guanghui Zhu¹, Aibo Wu¹, Xin-Jian Xu¹, Pei-Pei Xiao¹, Le Lu¹, Jingdong Liu¹, Yongwei Cao¹, Luonan Chen², Jun Wu², Xing-Ming Zhao²

Affiliations

¹ Department of Computer Science and Technology, Tongji University, Shanghai 201804, China (G.Z., P.-P.X., J.W., X.-M.Z.);Key Laboratory of Food Safety Research, Institute for Nutritional Sciences (A.W.), and Key Laboratory of Systems Biology (L.C.), Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, Shanghai 200031, China;Department of Mathematics, Shanghai University, Shanghai 200444, China (X.-J.X.); andMonsanto Company, St. Louis, Missouri 63167 (L.L., J.L., Y.C.).
² Department of Computer Science and Technology, Tongji University, Shanghai 201804, China (G.Z., P.-P.X., J.W., X.-M.Z.);Key Laboratory of Food Safety Research, Institute for Nutritional Sciences (A.W.), and Key Laboratory of Systems Biology (L.C.), Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, Shanghai 200031, China;Department of Mathematics, Shanghai University, Shanghai 200444, China (X.-J.X.); andMonsanto Company, St. Louis, Missouri 63167 (L.L., J.L., Y.C.) lnchen@sibs.ac.cn wujun@tongji.edu.cn xm_zhao@tongji.edu.cn.

Abstract

Maize (Zea mays) is one of the most important crops worldwide. To understand the biological processes underlying various traits of the crop (e.g. yield and response to stress), a detailed protein-protein interaction (PPI) network is highly demanded. Unfortunately, there are very few such PPIs available in the literature. Therefore, in this work, we present the Protein-Protein Interaction Database for Maize (PPIM), which covers 2,762,560 interactions among 14,000 proteins. The PPIM contains not only accurately predicted PPIs but also those molecular interactions collected from the literature. The database is freely available at http://comp-sysbio.org/ppim with a user-friendly powerful interface. We believe that the PPIM resource can help biologists better understand the maize crop.

Publication types

Research Support, Non-U.S. Gov't

MeSH terms

Databases, Protein*
Genome, Plant / genetics*
Internet
Phenotype
Plant Proteins / genetics
Plant Proteins / metabolism*
Protein Interaction Maps*
User-Computer Interface
Zea mays / genetics
Zea mays / metabolism*

Substances

Plant Proteins