Walking on a tissue-specific disease-protein-complex heterogeneous network for the discovery of disease-related protein complexes.

Abstract:

:Besides the pinpointing of individual disease-related genes, associating protein complexes to human inherited diseases is also of great importance, because a biological function usually arises from the cooperative behaviour of multiple proteins in a protein complex. Moreover, knowledge about disease-related protein complexes could also enhance the inference of disease genes and pathogenic genetic variants. Here, we have designed a computational systems biology approach to systematically analyse potential relationships between diseases and protein complexes. First, we construct a heterogeneous network which is composed of a disease-disease similarity layer, a tissue-specific protein-protein interaction layer, and a protein complex membership layer. Then, we propose a random walk model on this disease-protein-complex network for identifying protein complexes that are related to a query disease. With a series of leave-one-out cross-validation experiments, we show that our method not only possesses high performance but also demonstrates robustness regarding the parameters and the network structure. We further predict a landscape of associations between human diseases and protein complexes. This landscape can be used to facilitate the inference of disease genes, thereby benefiting studies on pathology of diseases.

journal_name

Biomed Res Int

authors

Jacquemin T,Jiang R

doi

10.1155/2013/732650

subject

Has Abstract

pub_date

2013-01-01 00:00:00

pages

732650

eissn

2314-6133

issn

2314-6141

journal_volume

2013

pub_type

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