A multi-network clustering method for detecting protein complexes from multiple heterogeneous networks

L Ou-Yang, H Yan, XF Zhang - BMC bioinformatics, 2017 - Springer
Background The accurate identification of protein complexes is important for the
understanding of cellular organization. Up to now, computational methods for protein …

Identifying protein complexes based on node embeddings obtained from protein-protein interaction networks

X Liu, Z Yang, S Sang, Z Zhou, L Wang, Y Zhang… - BMC …, 2018 - Springer
Background Protein complexes are one of the keys to deciphering the behavior of a cell
system. During the past decade, most computational approaches used to identify protein …

Weighted edge based clustering to identify protein complexes in protein–protein interaction networks incorporating gene expression profile

S Keretsu, R Sarmah - Computational Biology and Chemistry, 2016 - Elsevier
Protein complex detection from protein–protein interaction (PPI) network has received a lot
of focus in recent years. A number of methods identify protein complexes as dense sub …

An effective link-based clustering algorithm for detecting overlapping protein complexes in protein-protein interaction networks

L Hu, J Zhang, X Pan, X Luo… - IEEE Transactions on …, 2021 - ieeexplore.ieee.org
Protein complexes are one most important kind of functional modules for biological
processes in cells. In this regard, their detection is vital for understanding the principle of cell …

A method based on local density and random walks for complexes detection in protein interaction networks

L Yu, L Gao, K Li - Journal of Bioinformatics and Computational …, 2010 - World Scientific
In this paper, we present a method based on local density and random walks (LDRW) for
core-attachment complexes detection in protein-protein interaction (PPI) networks whether …

CAMWI: Detecting protein complexes using weighted clustering coefficient and weighted density

S Jalili, SA Marashi - Computational biology and chemistry, 2015 - Elsevier
Detection of protein complexes is very important to understand the principles of cellular
organization and function. Recently, large protein–protein interactions (PPIs) networks have …

An effective approach to detecting both small and large complexes from protein-protein interaction networks

B Xu, Y Wang, Z Wang, J Zhou, S Zhou, J Guan - BMC bioinformatics, 2017 - Springer
Background Predicting protein complexes from protein-protein interaction (PPI) networks
has been studied for decade. Various methods have been proposed to address some …

Protein complex detection in ppi network by identifying mutually exclusive protein-protein interactions

SKMM Hossain, Z Mahboob, R Chowdhury… - Procedia Computer …, 2016 - Elsevier
Identifying protein complexes within Protein-Protein Interaction Networks (PPINs) is an
important task in computational biology for analyzing biological processes and pathways. A …

A core-attachment based method to detect protein complexes in PPI networks

M Wu, X Li, CK Kwoh, SK Ng - BMC bioinformatics, 2009 - Springer
Background How to detect protein complexes is an important and challenging task in post
genomic era. As the increasing amount of protein-protein interaction (PPI) data are …

Protein complex detection with semi-supervised learning in protein interaction networks

L Shi, X Lei, A Zhang - Proteome science, 2011 - Springer
Abstract Background Protein-protein interactions (PPIs) play fundamental roles in nearly all
biological processes. The systematic analysis of PPI networks can enable a great …