Systematic analysis, comparison, and integration of disease based human genetic association data and mouse genetic phenotypic information

Abstract

Background: The genetic contributions to human common disorders and mouse genetic models of disease are complex and often overlapping. In common human diseases, unlike classical Mendelian disorders, genetic factors generally have small effect sizes, are multifactorial, and are highly pleiotropic. Likewise, mouse genetic models of disease often have pleiotropic and overlapping phenotypes. Moreover, phenotypic descriptions in the literature in both human and mouse are often poorly characterized and difficult to compare directly.

Methods: In this report, human genetic association results from the literature are summarized with regard to replication, disease phenotype, and gene specific results; and organized in the context of a systematic disease ontology. Similarly summarized mouse genetic disease models are organized within the Mammalian Phenotype ontology. Human and mouse disease and phenotype based gene sets are identified. These disease gene sets are then compared individually and in large groups through dendrogram analysis and hierarchical clustering analysis.

Results: Human disease and mouse phenotype gene sets are shown to group into disease and phenotypically relevant groups at both a coarse and fine level based on gene sharing.

Conclusion: This analysis provides a systematic and global perspective on the genetics of common human disease as compared to itself and in the context of mouse genetic models of disease.

Figure 1

Venn Diagram analysis of individual GAD disease gene sets (circles) versus pathways (rectangles) produced from the corresponding gene set. All Venn Diagrams were produced with Venny http://bioinfogp.cnb.csic.es/tools/venny/index.html.

Figure 2

Human dendrogram comparison of 480 GAD disease gene sets based on gene sharing. The input GAD gene set file for this figure can be found in Table S6[46].

Figure 3

Mouse dendrogram comparison of 1056 mouse phenotype (MP) gene sets based on gene sharing. The input MP gene set file for this figure can be found in Table S7[47].