ArticleNucleic acids research2013
Concordance of gene expression in human protein complexes reveals tissue specificity and pathology.
Article in Nucleic acids research, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 13 papers.
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Who cites it
13 citing papers in PubMed, 27 citations in OpenAlex.
- Article
- Tissue-specific co-expression patterns of BAF complex genes across human endocrine and non-endocrine tissues.Endocrine connections · 2025Article
- Protein Complexes Prediction Method Based on Core-Attachment Structure and Functional Annotations.International journal of molecular sciences · 2017Article
- Comprehensive Analysis of Tissue-wide Gene Expression and Phenotype Data Reveals Tissues Affected in Rare Genetic Disorders.Cell systems · 2017Article
- Spatiotemporal profile of postsynaptic interactomes integrates components of complex brain disorders.Nature neuroscience · 2017Article
- Pancreatic Islet Protein Complexes and Their Dysregulation in Type 2 Diabetes.Frontiers in genetics · 2017Article
- Disease gene prioritization by integrating tissue-specific molecular networks using a robust multi-network model.BMC bioinformatics · 2016Article
- Computational Reconstruction of NFκB Pathway Interaction Mechanisms during Prostate Cancer.PLoS computational biology · 2016Article
- Inference of domain-disease associations from domain-protein, protein-disease and disease-disease relationships.BMC systems biology · 2016Article
- Systems Medicine as an Emerging Tool for Cardiovascular Genetics.Frontiers in cardiovascular medicine · 2016Review
- Exploring the cellular basis of human disease through a large-scale mapping of deleterious genes to cell types.Genome medicine · 2015Article
- Concordant dysregulation of miR-5p and miR-3p arms of the same precursor microRNA may be a mechanism in inducing cell proliferation and tumorigenesis: a lung cancer study.RNA (New York, N.Y.) · 2015Article
- Article
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Authors and funding
6 authors at 5 institutions in 3 countries.
Funding
No grant is acknowledged in the PubMed record.
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 diseases and predicts the tissues where associated phenotypic effects may arise.
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