GeneFinder: "in silico" positional cloning of trait genes
(English)Manuscript (preprint) (Other (popular science, discussion, etc.))
Motivation: Positional cloning of trait genes is extremely laborious and the amount of information available on gene function in different organisms is increasing so rapidly that it is hard for a research group to collect all the relevant information from a number of data sources without performing a large number of manual and time consuming searches.
Results: A web service application named GeneFinder was designed and implemented. It collects selected available information related to trait loci within a given chromosomal region that control a specific phenotype. The information contains details on gene function, disease conditions, tissue expression as well as predicted gene homologies in several other species. The information gathered is further ordered by a special-purpose ranking algorithm. A web interface to the GeneFinder web service was also developed where the results are presented in a ranked list easing its interpretation. We explain the design of the architecture, show how our web interface works, and finally test a candidate region.
Availability: GeneFinder is publicly available and free to use. The web interface is available at http://www.genefinder.org/.
data integration, web services, GWAS, genome-wide association studies
Medical Genetics Bioinformatics and Systems Biology
Research subject Medical Genetics
IdentifiersURN: urn:nbn:se:uu:diva-112124OAI: oai:DiVA.org:uu-112124DiVA: diva2:284978