Imperial College London
Alternate

DrLachlanCoin

Faculty of Medicine, Department of Infectious Disease

Honorary Senior Lecturer
 
 
 
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Contact

 

+44 (0)20 7594 1930l.coin

 
 
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Location

 

172Medical SchoolSt Mary's Campus

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Summary

 

Publications

Citation

BibTex format

@article{Barrenas:2012:10.1186/gb-2012-13-6-r46,
author = {Barrenas, F and Chavali, S and Alves, AC and Coin, L and Jarvelin, MR and Jornsten, R and Langston, MA and Ramasamy, A and Rogers, G and Wang, H and others},
doi = {10.1186/gb-2012-13-6-r46},
journal = {Genome Biology},
pages = {R46--R46},
title = {Highly interconnected genes in disease-specific networks are enriched for disease-associated polymorphisms},
url = {http://dx.doi.org/10.1186/gb-2012-13-6-r46},
volume = {13},
year = {2012}
}
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RIS format (EndNote, RefMan)

TY  - JOUR
AB  - BackgroundComplex diseases are associated with altered interactions between thousands of genes. We developed a novel method to identify and prioritize disease genes, which was generally applicable to complex diseases.ResultsWe identified modules of highly interconnected genes in disease-specific networks derived from integrating gene-expression and protein interaction data. We examined if those modules were enriched for disease-associated SNPs, and could be used to find novel genes for functional studies. First, we analyzed publicly available gene expression microarray and genome-wide association study (GWAS) data from 13, highly diverse, complex diseases. In each disease, highly interconnected genes formed modules, which were significantly enriched for genes harboring disease-associated SNPs. To test if such modules could be used to find novel genes for functional studies, we repeated the analyses using our own gene expression microarray and GWAS data from seasonal allergic rhinitis. We identified a novel gene, FGF2, whose relevance was supported by functional studies using combined small interfering RNA-mediated knock-down and gene expression microarrays. The modules in the 13 complex diseases analyzed here tended to overlap and were enriched for pathways related to oncological, metabolic and inflammatory diseases. This suggested that this union of the modules would be associated with a general increase in susceptibility for complex diseases. Indeed, we found that this union was enriched with GWAS genes for 145 other complex diseases.ConclusionsModules of highly interconnected complex disease genes were enriched for disease-associated SNPs, and could be used to find novel genes for functional studies.
AU  - Barrenas,F
AU  - Chavali,S
AU  - Alves,AC
AU  - Coin,L
AU  - Jarvelin,MR
AU  - Jornsten,R
AU  - Langston,MA
AU  - Ramasamy,A
AU  - Rogers,G
AU  - Wang,H
AU  - others
DO  - 10.1186/gb-2012-13-6-r46
EP  - 46
PY  - 2012///
SN  - 1474-7596
SP  - 46
TI  - Highly interconnected genes in disease-specific networks are enriched for disease-associated polymorphisms
T2  - Genome Biology
UR  - http://dx.doi.org/10.1186/gb-2012-13-6-r46
UR  - https://genomebiology.biomedcentral.com/articles/10.1186/gb-2012-13-6-r46#Abs1
UR  - http://hdl.handle.net/10044/1/85639
VL  - 13
ER  -
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