title: Graph theoretic network analysis reveals protein pathways underlying cell death following neurotropic viral infection.
abstract: Complex protein networks underlie any cellular function. Certain proteins play a pivotal role in many network configurations, disruption of whose expression proves fatal to the cell. An efficient method to tease out such key proteins in a network is still unavailable. Here, we used graph-theoretic measures on protein-protein interaction data (interactome) to extract biophysically relevant information about individual protein regulation and network properties such as formation of function specific modules (sub-networks) of proteins. We took 5 major proteins that are involved in neuronal apoptosis post Chandipura Virus (CHPV) infection as seed proteins in a database to create a meta-network of immediately interacting proteins (1(st) order network). Graph theoretic measures were employed to rank the proteins in terms of their connectivity and the degree upto which they can be organized into smaller modules (hubs). We repeated the analysis on 2(nd) order interactome that includes proteins connected directly with proteins of 1(st) order. FADD and Casp-3 were connected maximally to other proteins in both analyses, thus indicating their importance in neuronal apoptosis. Thus, our analysis provides a blueprint for the detection and validation of protein networks disrupted by viral infections.
authors.affiliation: National Brain Research Centre, NH 8, Manesar, Gurgaon -122051, Haryana, India.
authors.forename: Sourish
authors.initials: S
authors.lastname: Ghosh
authors.affiliation: National Brain Research Centre, NH 8, Manesar, Gurgaon -122051, Haryana, India.
authors.forename: G Vinodh
authors.initials: GV
authors.lastname: Kumar
authors.affiliation: National Brain Research Centre, NH 8, Manesar, Gurgaon -122051, Haryana, India.
authors.forename: Anirban
authors.initials: A
authors.lastname: Basu
authors.affiliation: National Brain Research Centre, NH 8, Manesar, Gurgaon -122051, Haryana, India.
authors.forename: Arpan
authors.initials: A
authors.lastname: Banerjee
mesh_terms: D000818:Animals; D016923:Cell Death; D019295:Computational Biology / Q000379:methods; D051379:Mice; D009474:Neurons / Q000378:metabolism / Q000821:virology; D025941:Protein Interaction Mapping / Q000379:methods*; D060066:Protein Interaction Maps; D018353:Rhabdoviridae Infections / Q000378:metabolism* / Q000821:virology; D015398:Signal Transduction; D018116:Vesiculovirus