ArticleThe Plant cell2011
The predicted Arabidopsis interactome resource and network topology-based systems biology analyses.
Article in The Plant cell, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 22 papers.
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Who cites it
22 citing papers in PubMed.
- Reconstruction ofCurrent issues in molecular biology · 2024Article
- Harnessing the predicted maize pan-interactome for putative gene function prediction and prioritization of candidate genes for important traits.G3 (Bethesda, Md.) · 2024Article
- Structure-based prediction of protein-protein interaction network in rice.Genetics and molecular biology · 2024Article
- Amino acid motifs for the identification of novel protein interactants.Computational and structural biotechnology journal · 2023Review
- PlaPPISite: a comprehensive resource for plant protein-protein interaction sites.BMC plant biology · 2020Article
- The Protein-Protein Interaction Network ofFrontiers in physiology · 2019Article
- AraPPINet: An Updated Interactome for the Analysis of Hormone Signaling Crosstalk inFrontiers in plant science · 2019Article
- Predicted Arabidopsis Interactome Resource and Gene Set Linkage Analysis: A Transcriptomic Analysis Resource.Plant physiology · 2018Article
- The rolB plant oncogene affects multiple signaling protein modules related to hormone signaling and plant defense.Scientific reports · 2018Article
- Hub Protein Controversy: Taking a Closer Look at Plant Stress Response Hubs.Frontiers in plant science · 2018Review
- AraPPISite: a database of fine-grained protein-protein interaction site annotations for Arabidopsis thaliana.Plant molecular biology · 2016Article
- Reconstruction and Application of Protein-Protein Interaction Network.International journal of molecular sciences · 2016Review
- Genome-Wide Inference of Protein-Protein Interaction Networks Identifies Crosstalk in Abscisic Acid Signaling.Plant physiology · 2016Article
- PTIR: Predicted Tomato Interactome Resource.Scientific reports · 2016Article
- Inferring plant microRNA functional similarity using a weighted protein-protein interaction network.BMC bioinformatics · 2015Article
- Precise sequential DNA ligation on a solid substrate: solid-based rapid sequential ligation of multiple DNA molecules.DNA research : an international journal for rapid publication of reports on genes and genomes · 2013Article
- Predicting whole genome protein interaction networks from primary sequence data in model and non-model organisms using ENTS.BMC genomics · 2013Article
- Transcriptome comparison and gene coexpression network analysis provide a systems view of citrus response to 'Candidatus Liberibacter asiaticus' infection.BMC genomics · 2013Article
- Systems analysis of plant functional, transcriptional, physical interaction, and metabolic networks.The Plant cell · 2012Review
- Tackling drought stress: receptor-like kinases present new approaches.The Plant cell · 2012Review
Corrections and comments
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Authors and funding
5 authors.
Funding
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Abstract
Predicted interactions are a valuable complement to experimentally reported interactions in molecular mechanism studies, particularly for higher organisms, for which reported experimental interactions represent only a small fraction of their total interactomes. With careful engineering consideration of the lessons from previous efforts, the predicted arabidopsis interactome resource (PAIR; ) presents 149,900 potential molecular interactions, which are expected to cover approximately 24% of the entire interactome with approximately 40% precision. This study demonstrates that, although PAIR still has limited coverage, it is rich enough to capture many significant functional linkages within and between higher-order biological systems, such as pathways and biological processes. These inferred interactions can nicely power several network topology-based systems biology analyses, such as gene set linkage analysis, protein function prediction, and identification of regulatory genes demonstrating insignificant expression changes. The drastically expanded molecular network in PAIR has considerably improved the capability of these analyses to integrate existing knowledge and suggest novel insights into the function and coordination of genes and gene networks.
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