Table 1.
The acronyms and terms used in the present study.
| Acronyms/Terms | Description |
|---|---|
| VaC | Vaccine Candidates; proteins reported by Moriel et al. from Acinetobacter baumannii strain AYE and ATCC17978 |
| ViF | Virulent Factors; proteins reported by Moriel et al. from A. baumannii strain AYE and ATCC17978 |
| KeF | Key Factors; proteins retrieved from various databases and literature survey from strain AYE and ATCC17978 using common terms related to virulence |
| VFDB | Virulent Factors Database; database of several bacteria listing the known and/or predicted virulent factors as per literature |
| STRING | Search Tool for the Retrieval of Interacting Genes/Proteins; meta-database listing known and predicted protein–protein interactions from biological organisms |
| Cytoscape/Gephi | Interacting Software for visualizing node and edges of a graph and integrating them together |
| PIN | Protein Interaction Network; interaction pattern of proteins in a graphical form giving a network of nodes and edges |
| Interactome | A network of interacting entities; in the present study, this refers to Protein Interactome or PIN |
| Interactors | The molecules interacting in a network; in the present study, these are proteins interacting with VaC, ViF, or KeF |
| VaCAB | VaC PIN of A. baumannii; interactome of VaC with their interactors of strain ATCC19606 retrieved from STRING and visualized through Cytoscape/Gephi |
| ViFAB | ViF PIN of A. baumannii; interactome of ViF with their interactors of strain ATCC19606 retrieved from STRING and visualized through Cytoscape/Gephi |
| KeFAB | KeF PIN of A. baumannii; interactome of KeF with their interactors of strain ATCC19606 retrieved from STRING and visualized through Cytoscape/Gephi |
| SPIN | Small PIN of A. baumannii; this refers to VaCAB/ViFAB/KeFAB of A. baumannii strain ATCC19606 |
| GPIN | Genomic PIN of A. baumannii; interactome of the total number of proteins of whole genome of A. baumannii strain ATCC19606 retrieved from STRING and visualized through Cytoscape/Gephi |
| Network Analyser | Java Plug-in for Cytoscape for graph theoretical analysis of the network of nodes and edges |
| CytoNCA | Cytoscape Network Centrality Analyser; Cytoscape Java Plug-in for graph theoretical analysis of the network of nodes and edges |
| Centrality Measures | Graph theoretical measures for assessing the central character of nodes |
| BC/CC/DC/EC | Betweenness/Closeness/Degree/Eigenvector centrality measures; reflect measures for nodes of central passage/proximity/connectivity/weightage, respectively |
| k-Core | Maximally connected sub-graph of nodes having at least k-degree; achieved by gradually pruning all nodes of degree less than k |
| Modules | Sub-graphs of nodes having common aspects with respect to common biological functions |
| Functional Connectivity | Different classes of within-module and between-module connectivity |
| KFC | An approach combining k-core, functional connectivity, and centrality measures |
| Standalone BLAST | Offline Basic Local Alignment Search Tool; this comprises a downloadable version of the sequence alignment tool that can be installed locally on system and can be used with command lines to find the match/mismatch/gap between the given sequences |
| COG | Cluster of Orthologous Groups; similar groups of proteins having related functions |