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In particular, as suggested by protein network analysis (Fig. 3B), stathmin may play a central role in mediating bortezomib-induced apoptosis in MM cells.
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In fact many, of these literature-driven predictions can be verified by independent protein network analysis as is discussed later.
In addition, protein network analysis by MetaCore (GeneGo, St Joseph, MI, USA) showed that mtHsp70 and Hsp60 were found in the same interaction network (Supplementary Figure S3C).
Sahin O, Lobke C, Korf U, Appelhans H, Sultmann H, Poustka A, et al. Combinatorial RNAi for quantitative protein network analysis.
Protein network analysis highlighted complexes involved in cell cycle control and epigenetic regulation.
The protein network analysis for each bait protein yielded interesting results.
Functional protein network analysis was performed with STRING.
To further illustrate the regulatory network among overlapping proteins, we conducted a PPI (protein-protein interaction) network analysis using software STRING (http://version10.string-db.org/) (Supplemental Figure).
Existing studies have provided examples where gene functions can be correctly predicted using a "guilt-by-association" co-expression analysis, or through protein-protein interaction network analysis.
Protein-protein interaction network analysis was performed by checking REGγ highly-correlated genes in the STRING database http://string-db.org) [ 19].
Along with transcriptomics analysis, the protein-protein interaction network analysis help us to visualize and identify the key node proteins which are affected pathogen infections.
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