Computational protocol: Interactions among mitochondrial proteins altered in glioblastoma

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Protocol publication

[…] All quantified proteins were uploaded to the Database for Annotation, Visualization and Integrated Discovery (DAVID) ( [, ]) to determine subcellular localization based on gene-ontology (GO). Cognizant of the fact that mitochondrial preparations are enriched in, but are not exclusively mitochondrial proteins, significantly altered proteins (p ≤ 0.05, ≥2-fold-change) included in the GO term mitochondrion (GO:0005739) were identified from the master list, filtered out, reported and used for network analysis.Identifiers for altered proteins were uploaded to Ingenuity Pathway Analysis (IPA; Interactomes were algorithmically generated based on direct relationships (physical interactions and/or associations) between eligible proteins. Protein–protein interaction scores are putatively a measure of probability for the interactomes []. […]

Pipeline specifications

Software tools DAVID, IPA
Application Protein interaction analysis
Organisms Homo sapiens
Diseases Glioblastoma
Chemicals Superoxides