Augmented annotation and orthologue analysis for Oryctolagus cuniculus: Better Bunny.

BMC Bioinformatics
Douglas B CraigAlan A Dombkowski

Abstract

The rabbit is an important model organism used in a wide range of biomedical research. However, the rabbit genome is still sparsely annotated, thus prohibiting extensive functional analysis of gene sets derived from whole-genome experiments. We developed a web-based application that provides augmented annotation and orthologue analysis for rabbit genes. Importantly, the application allows comprehensive functional analysis through the use of orthologous relationships. Using data extracted from several public bioinformatics repositories we created Better Bunny, a database and query tool that extensively augments the available functional annotation for rabbit genes. Using the complete set of target genes from a commercial rabbit gene expression microarray as our benchmark, we are able to obtain functional information for 88 % of the genes on the microarray. Previously, functional information was available for fewer than 10 % of the rabbit genes. We have developed a freely available, web-accessible bioinformatics tool that enables investigators to quickly and easily perform extensive functional analysis of rabbit genes (http://cptweb.cpt.wayne.edu). The software application fills a critical void for a wide range of biomedical resea...Continue Reading

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Citations

Feb 27, 2015·International Journal of Experimental Pathology·Irina LeonardiIsabelle Frey-Wagner
Jun 20, 2020·Nature Communications·Karla J SuchackiWilliam P Cawthorn
Nov 20, 2018·Scientific Reports·Luca Penso-DolfinFederica Di Palma

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Software Mentioned

Ensembl
Database for Annotation , Visualization and Integrated Discove...
Better
DAVID
MySQL

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