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arXiv · 1910.01801

Symmetry in cancer networks identified: Proposal for multi-cancer biomarkers

Pramod Shinde·Loic Marrec·Aparna Rai·Alok Yadav·Rajesh Kumar·Mikhail Ivanchenko·Alexey Zaikin·Sarika Jalan
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Abstract

One of the most challenging problems in biomedicine and genomics is the identification of disease biomarkers. In this study, proteomics data from seven major cancers were used to construct two weighted protein-protein interaction (PPI) networks i.e., one for the normal and another for the cancer conditions. We developed rigorous, yet mathematically simple, methodology based on the degeneracy at -1 eigenvalues to identify structural symmetry or motif structures in network. Utilising eigenvectors corresponding to degenerate eigenvalues in the weighted adjacency matrix, we identified structural symmetry in underlying weighted PPI networks constructed using seven cancer data. Functional assessment of proteins forming these structural symmetry exhibited the property of cancer hallmarks. Survival analysis refined further this protein list proposing BMI, MAPK11, DDIT4, CDKN2A, and FYN as putative multi-cancer biomarkers. The combined framework of networks and spectral graph theory developed here can be applied to identify symmetrical patterns in other disease networks to predict proteins as potential disease biomarkers.

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Pramod Shinde, Loic Marrec, Aparna Rai, Alok Yadav, Rajesh Kumar, Mikhail Ivanchenko, Alexey Zaikin, Sarika Jalan. 2019-10-04. Symmetry in cancer networks identified: Proposal for multi-cancer biomarkers. https://arxiv.org/abs/1910.01801

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