CytoNCA: a cytoscape plugin for centrality analysis and evaluation of protein interaction networks
Background and scope Nowadays, centrality analysis has become a principal method for
identifying essential proteins in biological networks. Here we present CytoNCA, a Cytoscape …
identifying essential proteins in biological networks. Here we present CytoNCA, a Cytoscape …
Computational approaches for prioritizing candidate disease genes based on PPI networks
With the continuing development and improvement of genome-wide techniques, a great
number of candidate genes are discovered. How to identify the most likely disease genes …
number of candidate genes are discovered. How to identify the most likely disease genes …
Clustering and summarizing protein-protein interaction networks: A survey
SS Bhowmick, BS Seah - IEEE Transactions on Knowledge …, 2015 - ieeexplore.ieee.org
The increasing availability and significance of large-scale protein-protein interaction (ppi)
data has resulted in a flurry of research activity to comprehend the organization, processes …
data has resulted in a flurry of research activity to comprehend the organization, processes …
United complex centrality for identification of essential proteins from PPI networks
Essential proteins are indispensable for the survival or reproduction of an organism.
Identification of essential proteins is not only necessary for the understanding of the minimal …
Identification of essential proteins is not only necessary for the understanding of the minimal …
Identifying communities from multiplex biological networks
Various biological networks can be constructed, each featuring gene/protein relationships of
different meanings (eg, protein interactions or gene co-expression). However, this diversity …
different meanings (eg, protein interactions or gene co-expression). However, this diversity …
Searching for repetitions in biological networks: methods, resources and tools
We present here a compact overview of the data, models and methods proposed for the
analysis of biological networks based on the search for significant repetitions. In particular …
analysis of biological networks based on the search for significant repetitions. In particular …
Identifying spurious interactions in the protein-protein interaction networks using local similarity preserving embedding
In recent years, a remarkable amount of protein-protein interaction (PPI) data are being
available owing to the advance made in experimental high-throughput technologies …
available owing to the advance made in experimental high-throughput technologies …
Quantitative assessment of gene expression network module-validation methods
B Li, Y Zhang, Y Yu, P Wang, Y Wang, Z Wang… - Scientific reports, 2015 - nature.com
Validation of pluripotent modules in diverse networks holds enormous potential for systems
biology and network pharmacology. An arising challenge is how to assess the accuracy of …
biology and network pharmacology. An arising challenge is how to assess the accuracy of …
Core and peripheral connectivity based cluster analysis over PPI network
A number of methods have been proposed in the literature of protein–protein interaction
(PPI) network analysis for detection of clusters in the network. Clusters are identified by …
(PPI) network analysis for detection of clusters in the network. Clusters are identified by …
Unsupervised methods for finding protein complexes from PPI networks
Complex biological systems are often represented as networks and studied computationally.
In protein–protein interaction networks, interactions give rise to certain compounds known …
In protein–protein interaction networks, interactions give rise to certain compounds known …