ArticlePlant physiology2010
Deciphering the Arabidopsis floral transition process by integrating a protein-protein interaction network and gene expression data.
Article in Plant physiology, 2010. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 12 papers.
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Who cites it
12 citing papers in PubMed.
- Co-expression Networks From Gene Expression Variability Between Genetically Identical Seedlings Can Reveal Novel Regulatory Relationships.Frontiers in plant science · 2020Article
- Genome-wide dynamic network analysis reveals a critical transition state of flower development in Arabidopsis.BMC plant biology · 2019Article
- Differential Coexpression Analysis Reveals Extensive Rewiring of Arabidopsis Gene Coexpression in Response to Pseudomonas syringae Infection.Scientific reports · 2016Article
- AraPPISite: a database of fine-grained protein-protein interaction site annotations for Arabidopsis thaliana.Plant molecular biology · 2016Article
- Network-Based Comparative Analysis of Arabidopsis Immune Responses to Golovinomyces orontii and Botrytis cinerea Infections.Scientific reports · 2016Article
- Competition-cooperation relationship networks characterize the competition and cooperation between proteins.Scientific reports · 2015Article
- Revealing shared and distinct gene network organization in Arabidopsis immune responses by integrative analysis.Plant physiology · 2015Article
- An integrated approach (CLuster Analysis Integration Method) to combine expression data and protein-protein interaction networks in agrigenomics: application on Arabidopsis thaliana.Omics : a journal of integrative biology · 2014Article
- Drug repositioning for orphan genetic diseases through Conserved Anticoexpressed Gene Clusters (CAGCs).BMC bioinformatics · 2013Article
- Why assembling plant genome sequences is so challenging.Biology · 2012Article
- Protein interaction network of Arabidopsis thaliana female gametophyte development identifies novel proteins and relations.PloS one · 2012Article
- Integrating Rare-Variant Testing, Function Prediction, and Gene Network in Composite Resequencing-Based Genome-Wide Association Studies (CR-GWAS).G3 (Bethesda, Md.) · 2011Article
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Authors and funding
3 authors.
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Abstract
In a plant, the progression from vegetative growth to reproductive growth is called the floral transition. Over the past several decades, the floral transition has been shown to be determined not by a single gene but by a complicated gene network. This important biological process, however, has not been investigated at a genome-wide network level. We collected Arabidopsis (Arabidopsis thaliana) protein-protein interaction data from several public databases and compiled them into a genome-wide Arabidopsis interactome. Then, we integrated gene expression profiles during the Arabidopsis floral transition process into the established protein-protein interaction network to identify two types of anticorrelated modules associated with vegetative and reproductive growth. Generally, the vegetative modules are conserved in plants, while the reproductive modules are more specific to advanced plants. The existence of floral transition switches demonstrates that vegetative and reproductive processes might be coordinated by the interacting interface of these modules. Our work also provides many candidates for mediating the interactions between these modules, which may play important roles during the Arabidopsis vegetative/reproductive switch.
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