Paper Info
Title
CLARM: an integrative approach for functional modules discovery
Abstract
Functional module discovery aims to find well-connected subnetworks which can serve as candidate protein complexes. Advances in High-throughput proteomic technologies have enabled the collection of large amount of interaction data as well as gene expression data. We propose, CLARM, a clustering algorithm that integrates gene expression profiles and protein protein interaction network for biological modules discovery. The main premise is that by enriching the interaction network by adding interactions between genes which are highly co-expressed over a wide range of biological and environmental conditions, we can improve the quality of the discovered modules. Protein protein interactions, known protein complexes, and gene expression profiles for diverse environmental conditions from the yeast Saccharomyces cerevisiae were used for evaluate the biological significance of the reported modules. Our experiments show that the CLARM approach is competitive to well-established module discovery methods.
Year
DOI
Venue
2011
10.1145/2147805.2147917
BCB
Keywords
Field
DocType
protein protein interaction network,gene expression profile,biological modules discovery,protein protein interaction,gene expression data,known protein complex,biological significance,integrative approach,functional modules discovery,candidate protein complex,interaction data,functional module discovery,interaction network,high throughput,semantic similarity,protein protein interactions,protein complex
Semantic similarity,Gene,Protein–protein interaction,Biology,Gene expression,Interaction network,Computational biology,Saccharomyces cerevisiae,Cluster analysis,Genetics,Functional module
Conference
Citations 
PageRank 
References 
0
0.34
8
Authors
6
Name
Order
Citations
PageRank
Saeed Salem118217.39
Loqmane Seridi200.34
Rami Alroobi311.38
James Brewer400.34
Shadi Banitaan5479.14
Ibrahim Aljarah670333.62