title: AIM: a comprehensive Arabidopsis interactome module database and related interologs in plants.
abstract: Systems biology analysis of protein modules is important for understanding the functional relationships between proteins in the interactome. Here, we present a comprehensive database named AIM for Arabidopsis (Arabidopsis thaliana) interactome modules. The database contains almost 250,000 modules that were generated using multiple analysis methods and integration of microarray expression data. All the modules in AIM are well annotated using multiple gene function knowledge databases. AIM provides a user-friendly interface for different types of searches and offers a powerful graphical viewer for displaying module networks linked to the enrichment annotation terms. Both interactive Venn diagram and power graph viewer are integrated into the database for easy comparison of modules. In addition, predicted interologs from other plant species (homologous proteins from different species that share a conserved interaction module) are available for each Arabidopsis module. AIM is a powerful systems biology platform for obtaining valuable insights into the function of proteins in Arabidopsis and other plants using the modules of the Arabidopsis interactome. Database URL:http://probes.pw.usda.gov/AIM
authors.affiliation: USDA-ARS, Western Regional Research Center, Genomics and Gene Discovery Research Unit, Albany, CA 94710, USA, Department of Plant Sciences, University of California, Davis, CA 95616, USA, Bioengineering College, Campus A, Chongqing University, Chongqing 400030, China, USDA-ARS, Western Regional Research Center, Crop Improvement and Utilization Research Unit, Albany, CA 94710, USA and Energy Biosciences Institute, University of California, Berkeley, CA 94720, USA USDA-ARS, Western Regional Research Center, Genomics and Gene Discovery Research Unit, Albany, CA 94710, USA, Department of Plant Sciences, University of California, Davis, CA 95616, USA, Bioengineering College, Campus A, Chongqing University, Chongqing 400030, China, USDA-ARS, Western Regional Research Center, Crop Improvement and Utilization Research Unit, Albany, CA 94710, USA and Energy Biosciences Institute, University of California, Berkeley, CA 94720, USA USDA-ARS, Western Regional Research Center, Genomics and Gene Discovery Research Unit, Albany, CA 94710, USA, Department of Plant Sciences, University of California, Davis, CA 95616, USA, Bioengineering College, Campus A, Chongqing University, Chongqing 400030, China, USDA-ARS, Western Regional Research Center, Crop Improvement and Utilization Research Unit, Albany, CA 94710, USA and Energy Biosciences Institute, University of California, Berkeley, CA 94720, USA Yong.Gu@ars.usda.gov.
authors.forename: Yi
authors.initials: Y
authors.lastname: Wang
authors.affiliation: USDA-ARS, Western Regional Research Center, Genomics and Gene Discovery Research Unit, Albany, CA 94710, USA, Department of Plant Sciences, University of California, Davis, CA 95616, USA, Bioengineering College, Campus A, Chongqing University, Chongqing 400030, China, USDA-ARS, Western Regional Research Center, Crop Improvement and Utilization Research Unit, Albany, CA 94710, USA and Energy Biosciences Institute, University of California, Berkeley, CA 94720, USA.
authors.forename: Roger
authors.initials: R
authors.lastname: Thilmony
authors.affiliation: USDA-ARS, Western Regional Research Center, Genomics and Gene Discovery Research Unit, Albany, CA 94710, USA, Department of Plant Sciences, University of California, Davis, CA 95616, USA, Bioengineering College, Campus A, Chongqing University, Chongqing 400030, China, USDA-ARS, Western Regional Research Center, Crop Improvement and Utilization Research Unit, Albany, CA 94710, USA and Energy Biosciences Institute, University of California, Berkeley, CA 94720, USA.
authors.forename: Yunjun
authors.initials: Y
authors.lastname: Zhao
authors.affiliation: USDA-ARS, Western Regional Research Center, Genomics and Gene Discovery Research Unit, Albany, CA 94710, USA, Department of Plant Sciences, University of California, Davis, CA 95616, USA, Bioengineering College, Campus A, Chongqing University, Chongqing 400030, China, USDA-ARS, Western Regional Research Center, Crop Improvement and Utilization Research Unit, Albany, CA 94710, USA and Energy Biosciences Institute, University of California, Berkeley, CA 94720, USA.
authors.forename: Guoping
authors.initials: G
authors.lastname: Chen
authors.affiliation: USDA-ARS, Western Regional Research Center, Genomics and Gene Discovery Research Unit, Albany, CA 94710, USA, Department of Plant Sciences, University of California, Davis, CA 95616, USA, Bioengineering College, Campus A, Chongqing University, Chongqing 400030, China, USDA-ARS, Western Regional Research Center, Crop Improvement and Utilization Research Unit, Albany, CA 94710, USA and Energy Biosciences Institute, University of California, Berkeley, CA 94720, USA Yi.Wang@ars.usda.gov.
authors.forename: Yong Q
authors.initials: YQ
authors.lastname: Gu
mesh_terms: D000040:Abscisic Acid / Q000494:pharmacology; D017360:Arabidopsis / Q000378:metabolism*; D029681:Arabidopsis Proteins / Q000378:metabolism*; D030562:Databases, Protein; D020407:Internet; D010944:Plants / Q000378:metabolism*; D060066:Protein Interaction Maps; D015854:Up-Regulation / Q000187:drug effects; D014584:User-Computer Interface
chemical_list: D029681:Arabidopsis Proteins; D000040:Abscisic Acid