Bioinformatics tools and database resources for systems genetics analysis in mice-A short review and an evaluation of future needs

Caroline Durrant, Morris A. Swertz, Rudi Alberts, Danny Arends, Steffen Möller, Richard Mott, Pjotr Prins, K. Joeri van der Velde, Ritsert C. Jansen, Klaus Schughart*

*Corresponding author for this work

Research output: Contribution to journalShort surveypeer-review

10 Citations (Scopus)

Abstract

During a meeting of the SYSGENET working group 'Bioinformatics', currently available software tools and databases for systems genetics in mice were reviewed and the needs for future developments discussed. The group evaluated interoperability and performed initial feasibility studies. To aid future compatibility of software and exchange of already developed software modules, a strong recommendation was made by the group to integrate HAPPY and R/qtl analysis toolboxes, GeneNetwork and XGAP database platforms, and TIQS and xQTL processing platforms. R should be used as the principal computer language for QTL data analysis in all platforms and a 'cloud' should be used for software dissemination to the community. Furthermore, the working group recommended that all data models and software source code should be made visible in public repositories to allow a coordinated effort on the use of common data structures and file formats.

Original languageEnglish
Article numberbbr026
Pages (from-to)135-142
Number of pages8
JournalBriefings in Bioinformatics
Volume13
Issue number2
DOIs
Publication statusPublished - Mar 2012
Externally publishedYes

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