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. 2024 Aug 12;14(1):18666.
doi: 10.1038/s41598-024-69705-9.

Network analysis to identify driver genes and combination drugs in brain cancer

Farinaz Roshani  1 , Mobina Ahvar  2 , Ali Ebrahimi  3   4
Affiliations

Network analysis to identify driver genes and combination drugs in brain cancer

Farinaz Roshani et al. Sci Rep. .

Abstract

Brain cancer is one of the deadliest diseases, although many efforts have been made to treat it, there is no comprehensive and effective treatment approach yet. In recent years, the use of network-based analysis to identify important biological genes and pathways involved in various complex diseases, including brain cancer, has attracted the attention of researchers. The goal of this manuscript is to perform a comprehensive analysis of the various results presented related to brain cancer. For this purpose, firstly, based on the CORMINE medical database, collected all the genes related to brain cancer with a valid P-value. Then the structural and functional relationships between the above gene sets have been identified based on the STRING database. Next, in the PPI network, hub centrality analysis was performed to determine the proteins that have many connections with other proteins. After the modularization of the network, the module with the most hub vertices is considered as the most relevant module to the formation and progression of brain cancer. Since the driver vertices play an important role in biological systems, the edges of the selected module were oriented, and by analyzing the controllability of complex networks, a set of five proteins with the highest control power has been identified. Finally, based on the drug-gene interaction, a set of drugs effective on each of the driver genes has been obtained, which can potentially be used as new combination drugs. Validation of the hub and driver proteins shows that they are mainly essential proteins in the biological processes related to the various cancers and therefore the drugs that affect them can be considered as new combination therapy. The presented procedure can be used for any other complex disease.

Keywords: Brain cancer; Controllability; Driver gene; Hub proteins; Network; Systems biology.

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Conflict of interest statement

The authors declare no competing interests.

Figures

Figure 1
Figure 1
Work process flow chart.
Figure 2
Figure 2
Driver proteins in ninth module.
See this image and copyright information in PMC

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