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BMCBI
2007
154views more  BMCBI 2007»
10 years 4 months ago
Inferring biological networks with output kernel trees
Background: Elucidating biological networks between proteins appears nowadays as one of the most important challenges in systems biology. Computational approaches to this problem ...
Pierre Geurts, Nizar Touleimat, Marie Dutreix, Flo...
BMCBI
2006
133views more  BMCBI 2006»
10 years 4 months ago
Choosing negative examples for the prediction of protein-protein interactions
The protein-protein interaction networks of even well-studied model organisms are sketchy at best, highlighting the continued need for computational methods to help direct experim...
Asa Ben-Hur, William Stafford Noble
BIOINFORMATICS
2006
101views more  BIOINFORMATICS 2006»
10 years 4 months ago
A lock-and-key model for protein-protein interactions
Motivation: Protein-protein interaction networks are one of the major post-genomic data sources available to molecular biologists. They provide a comprehensive view of the global ...
Julie L. Morrison, Rainer Breitling, Desmond J. Hi...
BMCBI
2010
114views more  BMCBI 2010»
10 years 4 months ago
Detection of gene orthology from gene co-expression and protein interaction networks
Background: Ortholog detection methods present a powerful approach for finding genes that participate in similar biological processes across different organisms, extending our und...
Fadi Towfic, Susan VanderPlas, Casey A. Oliver, Ol...
CSB
2005
IEEE
141views Bioinformatics» more  CSB 2005»
10 years 9 months ago
A Parallel Algorithm for Clustering Protein-Protein Interaction Networks
The increasing availability of interaction graphs requires new resource-efficient tools capable of extracting valuable biological knowledge from these networks. In this paper we ...
Qiaofeng Yang, Stefano Lonardi
ICPR
2008
IEEE
10 years 10 months ago
Detecting hubs and quasi cliques in scale-free networks
Scale-free networks are believed to closely model most real-world networks. An interesting property of such networks is the existence of so-called hub and community structures. In...
Sriganesh Srihari, Hoong Kee Ng, Kang Ning, Hon Wa...
WABI
2009
Springer
162views Bioinformatics» more  WABI 2009»
10 years 10 months ago
Aligning Biomolecular Networks Using Modular Graph Kernels
Comparative analysis of biomolecular networks constructed using measurements from different conditions, tissues, and organisms offer a powerful approach to understanding the stru...
Fadi Towfic, M. Heather West Greenlee, Vasant Hona...
ISBRA
2009
Springer
10 years 11 months ago
Querying Protein-Protein Interaction Networks
Recent techniques increase the amount of our knowledge of interactions between proteins. To filter, interpret and organize this data, many authors have provided tools for querying...
Guillaume Blin, Florian Sikora, Stéphane Vi...
BIBM
2009
IEEE
151views Bioinformatics» more  BIBM 2009»
10 years 11 months ago
Detection of Gene Orthology Based on Protein-Protein Interaction Networks
Abstract—Ortholog detection methods present a powerful approach for finding genes that participate in similar biological processes across different organisms, extending our unde...
Fadi Towfic, M. Heather West Greenlee, Vasant Hona...
RECOMB
2005
Springer
11 years 4 months ago
Improved Duplication Models for Proteome Network Evolution
Protein-protein interaction networks, particularly that of the yeast S. Cerevisiae, have recently been studied extensively. These networks seem to satisfy the small world property ...
Gürkan Bebek, Petra Berenbrink, Colin Cooper,...
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