Resources for systems biology in rice

Systems biology is an upcoming trend in the field of functional genomics. Recently, there has been a significant improvement in the resources for systems biology in Oryza sativa (rice), a model crop. These resources include whole-genome sequencing/re-sequencing data, transcriptomes, protein-protein interactomes, reactomes, functional gene network tools, and gene indexed mutant populations. The integration of diverse omics data can lead to greater understanding of the functional genomics of rice. In this review, we address the development and current progress of the resources available for systems biology in rice: Genome browsers and databases for the orthology identification, transcriptome analysis, protein-protein interaction network and functional gene network analyses, a co-expression network, metabolic pathway analysis for promoter analysis, and gene indexed mutants.