Understanding complex networks of protein-protein interactions (PPIs) is one of the foremost challenges of the post-genomic era. Due to the recent advances in experimental bio-technology, including yeast-2-hybrid (Y2H), tandem affinity purification (TAP) and other high-throughput methods for protein-protein interaction (PPI) detection, huge amounts of PPI network data are becoming available. Of...

The aim of this study was to explore the pivotal genes or lncRNAs involved in progression atrial fibrillation (AF) -valvular heart disease (VHD). mRNA profiling GSE113013 obtained from Gene Expression Omnibus database. identification differentially expressed (DEGs) and long non-coding RNAs (DElncRNAs) performed. Ontology Kyoto Encyclopedia Genes Genomes pathway enrichment analyses were carried ...

Motivation Protein complexes are one of the keys to studying the behavior of a cell system. Many biological functions are carried out by protein complexes. During the past decade, the main strategy used to identify protein complexes from high-throughput network data has been to extract near-cliques or highly dense subgraphs from a single protein-protein interaction (PPI) network. Although exper...

Understanding the evolution and structure of protein-protein interaction (PPI) networks is a central problem of systems biology. Since most processes in the cell are carried out by groups of proteins acting together, a theoretical model of how PPI networks develop based on duplications and mutations is an essential ingredient for understanding the complex wiring of the cell. Many different netw...

Protein-protein interaction (PPI) network analysis is a powerful strategy to understand M. tuberculosis (Mtb) system level physiology in the identification of hub proteins. In the present study, the PPI network of 79 Mtb toxin-antitoxin (TA) systems comprising of 167 nodes and 234 edges was investigated. The topological properties of PPI network were examined by 'Network analyzer' a cytoscape p...

Recent technologies give us comprehensive protein-protein interactions (PPI). Most of the PPI network analysis methods focus on local interaction structures [1, 2]. In this study, to understand the global regulation of cellular functions within the PPI network, we introduce the summarization method of the large PPI network under the restriction of both network relationships and homogeneity of k...

We have studied the changes in protein-protein interaction network of 38 different tissues of the human body. 123 gene expression samples from these tissues were used to construct human protein-protein interaction network. This network is then pruned using the gene expression samples of each tissue to construct different protein-protein interaction networks corresponding to different studied ti...

Proteins in the same protein complexes should highly interact with each other but rarely interact with the other proteins in protein-protein interaction (PPI) networks. All interaction network weighting schemes have been proposed so far in the literature in order to eliminate the noise inherent in interactome data. Visualization representation of data visually and is an important task in scient...

Protein synthesis is one of the most important reactions in the cell. Recent experimental studies indicated that this complex reaction can be achieved with a minimum complement of 36 proteins and ribosomes by reconstituting an Escherichia coli-based in vitro translation system with these protein components highly purified on an individual basis. From the protein-protein interaction (PPI) networ...