GeneNetwork serves as a database and analysis engine for QTL mapping and genetic correlations among strain phenotypic means obtained in the BXD RI reference population. Strain means were computed in MouseTrack by sex and other cofactors. For pooled sexes, the mean values were the least-squares means with strain, sex and strain × sex in the model. Male and female strain means for each phenotyping battery were exported from MouseTrack for submission to GeneNetwork.org. This enables gene expression correlation and interval mapping, candidate gene searches and multi-trait analyses.