ArticlePlant & cell physiology2009
PosMed-plus: an intelligent search engine that inferentially integrates cross-species information resources for molecular breeding of plants.
Article in Plant & cell physiology, 2009. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 11 papers.
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Who cites it
11 citing papers in PubMed.
- Knowledge Discovery in Biological Databases for Revealing Candidate Genes Linked to Complex Phenotypes.Journal of integrative bioinformatics · 2017Review
- Prioritization of candidate genes in QTL regions based on associations between traits and biological processes.BMC plant biology · 2014Article
- Review
- PosMed: Ranking genes and bioresources based on Semantic Web Association Study.Nucleic acids research · 2013Article
- The plant ontology as a tool for comparative plant anatomy and genomic analyses.Plant & cell physiology · 2013Article
- Taking the next step: building an Arabidopsis information portal.The Plant cell · 2012Article
- Advances in omics and bioinformatics tools for systems analyses of plant functions.Plant & cell physiology · 2011Review
- ARTADE2DB: improved statistical inferences for Arabidopsis gene functions and structure predictions by dynamic structure-based dynamic expression (DSDE) analyses.Plant & cell physiology · 2011Article
- Article
- The RIKEN integrated database of mammals.Nucleic acids research · 2011Article
- Omics and bioinformatics: an essential toolbox for systems analyses of plant functions beyond 2010.Plant & cell physiology · 2009Article
Corrections and comments
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Authors and funding
17 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Molecular breeding of crops is an efficient way to upgrade plant functions useful to mankind. A key step is forward genetics or positional cloning to identify the genes that confer useful functions. In order to accelerate the whole research process, we have developed an integrated database system powered by an intelligent data-retrieval engine termed PosMed-plus (Positional Medline for plant upgrading science), allowing us to prioritize highly promising candidate genes in a given chromosomal interval(s) of Arabidopsis thaliana and rice, Oryza sativa. By inferentially integrating cross-species information resources including genomes, transcriptomes, proteomes, localizomes, phenomes and literature, the system compares a user's query, such as phenotypic or functional keywords, with the literature associated with the relevant genes located within the interval. By utilizing orthologous and paralogous correspondences, PosMed-plus efficiently integrates cross-species information to facilitate the ranking of rice candidate genes based on evidence from other model species such as Arabidopsis. PosMed-plus is a plant science version of the PosMed system widely used by mammalian researchers, and provides both a powerful integrative search function and a rich integrative display of the integrated databases. PosMed-plus is the first cross-species integrated database that inferentially prioritizes candidate genes for forward genetics approaches in plant science, and will be expanded for wider use in plant upgrading in many species.
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