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. 2016 Jan 4;44(D1):D840-7.
doi: 10.1093/nar/gkv1211. Epub 2015 Nov 17.

Mouse genome database 2016

Carol J Bult  1 , Janan T Eppig  2 , Judith A Blake  2 , James A Kadin  2 , Joel E Richardson  2 ; Mouse Genome Database Group
Affiliations

Mouse genome database 2016

Carol J Bult et al. Nucleic Acids Res. .

Abstract

The Mouse Genome Database (MGD; http://www.informatics.jax.org) is the primary community model organism database for the laboratory mouse and serves as the source for key biological reference data related to mouse genes, gene functions, phenotypes and disease models with a strong emphasis on the relationship of these data to human biology and disease. As the cost of genome-scale sequencing continues to decrease and new technologies for genome editing become widely adopted, the laboratory mouse is more important than ever as a model system for understanding the biological significance of human genetic variation and for advancing the basic research needed to support the emergence of genome-guided precision medicine. Recent enhancements to MGD include new graphical summaries of biological annotations for mouse genes, support for mobile access to the database, tools to support the annotation and analysis of sets of genes, and expanded support for comparative biology through the expansion of homology data.

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Figures

Figure 1.
Figure 1.
(A) Example of the visual overview grid for phenotype attributes associated with the Cav1 gene in MGI. (B) Expanded list of the Mammalian Phenotype Ontology terms grouped under the ‘behavior/neurological’ grouping term. (C) Details of the phenotype annotations with links to the published literature.
Figure 2.
Figure 2.
Screenshot of the References ribbon on the MGI gene detail page. (A) References are now grouped according to the specific biological attribute with which they are associated. (B) Screenshot showing references associated with disease model annotations for the Cav1 gene in MGI.
Figure 3.
Figure 3.
Images from the MGI Genome Compass smartphone app available from the Apple Store. Entries in a favorites list can be tagged with user supplied labels and notes. Updates in MGI for all items in the favorites list can sort by the date of the update or by the term/gene symbol.
Figure 4.
Figure 4.
(A) Results of search for all genes in MGI annotated to the Mammalian Phenotype Ontology term of ‘herniated diaphragm’ (MP:0003924). From this page users can download the list of results or forward the gene list to Batch Query or MouseMine to annotate/analyze the set of genes. (B) Forwarding gene sets to MouseMine results in automatic annotation enrichment. (C) Results of annotating the gene set in panel A with human disease associations using Batch Query.
Figure 5.
Figure 5.
Screenshot of the Nbeal2 targeted allele detail page in MGI. (A) Toggling the ‘more details’ arrow for hematopoietic system reveals different phenotype annotations from IMPC-WTSI, MGI and WTSI (Mouse Genetics Program).
See this image and copyright information in PMC

References

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