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

M.C. Durrant, M.A. Swertz, R. Alberts, D. Arends, S. Möller, R. Mott, J.C.P. Prins, K.J. van der Velde, R.C. Jansen, K. Schughart

Research output: Contribution to journalArticleAcademicpeer-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
Pages (from-to)135-142
JournalBriefings in Bioinformatics
Volume13
Issue number2
DOIs
Publication statusPublished - 2012

Keywords

  • quantitative trait loci
  • collaborative cross
  • powerful resource
  • complex
  • atherosclerosis
  • genomics
  • biology
  • genes
  • r/qtl
  • men

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