Aug 8, 2013

Concordance of gene expression in human protein complexes reveals tissue specificity and pathology

Nucleic Acids Research
Daniela BörnigenSøren Brunak

Abstract

Disease-causing variants in human genes usually lead to phenotypes specific to only a few tissues. Here, we present a method for predicting tissue specificity based on quantitative deregulation of protein complexes. The underlying assumption is that the degree of coordinated expression among proteins in a complex within a given tissue may pinpoint tissues that will be affected by a mutation in the complex and coordinated expression may reveal the complex to be active in the tissue. We identified known disease genes and their protein complex partners in a high-quality human interactome. Each susceptibility gene's tissue involvement was ranked based on coordinated expression with its interaction partners in a non-disease global map of human tissue-specific expression. The approach demonstrated high overall area under the curve (0.78) and was very successfully benchmarked against a random model and an approach not using protein complexes. This was illustrated by correct tissue predictions for three case studies on leptin, insulin-like-growth-factor 2 and the inhibitor of NF-κB kinase subunit gamma that show high concordant expression in biologically relevant tissues. Our method identifies novel gene-phenotype associations in human...Continue Reading

  • References42
  • Citations6

References

Mentioned in this Paper

Cancer-Predisposing Gene
Complex (molecular entity)
Tissue Specificity
Gene Expression
Protein Complex Location
Protein Interaction Mapping
Lamin Type A
NR4A2 protein, human
Leptin
Human Tissue

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