A mini review of node centrality metrics in biological networks
The diversity of nodes in a complex network causes each node to have varying significance,
and the important nodes often have a significant impact on the structure and function of the …
and the important nodes often have a significant impact on the structure and function of the …
A travel guide to Cytoscape plugins
Cytoscape is open-source software for integration, visualization and analysis of biological
networks. It can be extended through Cytoscape plugins, enabling a broad community of …
networks. It can be extended through Cytoscape plugins, enabling a broad community of …
Deficient butyrate-producing capacity in the gut microbiome is associated with bacterial network disturbances and fatigue symptoms in ME/CFS
Myalgic encephalomyelitis/chronic fatigue syndrome (ME/CFS) is characterized by
unexplained debilitating fatigue, cognitive dysfunction, gastrointestinal disturbances, and …
unexplained debilitating fatigue, cognitive dysfunction, gastrointestinal disturbances, and …
Spatiotemporal developmental trajectories in the Arabidopsis root revealed using high-throughput single-cell RNA sequencing
High-throughput single-cell RNA sequencing (scRNA-seq) is becoming a cornerstone of
developmental research, providing unprecedented power in understanding dynamic …
developmental research, providing unprecedented power in understanding dynamic …
A basement membrane discovery pipeline uncovers network complexity, regulators, and human disease associations
R Jayadev, MRPT Morais, JM Ellingford… - Science …, 2022 - science.org
Basement membranes (BMs) are ubiquitous extracellular matrices whose composition
remains elusive, limiting our understanding of BM regulation and function. By developing a …
remains elusive, limiting our understanding of BM regulation and function. By developing a …
cytoHubba: identifying hub objects and sub-networks from complex interactome
Background Network is a useful way for presenting many types of biological data including
protein-protein interactions, gene regulations, cellular pathways, and signal transductions …
protein-protein interactions, gene regulations, cellular pathways, and signal transductions …
Protist communities are more sensitive to nitrogen fertilization than other microorganisms in diverse agricultural soils
Background Agricultural food production is at the base of food and fodder, with fertilization
having fundamentally and continuously increased crop yield over the last decades. The …
having fundamentally and continuously increased crop yield over the last decades. The …
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 …
The roles of post-translational modifications in the context of protein interaction networks
Among other effects, post-translational modifications (PTMs) have been shown to exert their
function via the modulation of protein-protein interactions. For twelve different main PTM …
function via the modulation of protein-protein interactions. For twelve different main PTM …
Sporadic autism exomes reveal a highly interconnected protein network of de novo mutations
It is well established that autism spectrum disorders (ASD) have a strong genetic
component; however, for at least 70% of cases, the underlying genetic cause is unknown …
component; however, for at least 70% of cases, the underlying genetic cause is unknown …