Minimum dominating set-based methods for analyzing biological networks

Methods : a Companion to Methods in Enzymology
Jose C Nacher, Tatsuya Akutsu

Abstract

The fast increase of 'multi-omics' data does not only pose a computational challenge for its analysis but also requires novel algorithmic methodologies to identify complex biological patterns and decipher the ultimate roots of human disorders. To that end, the massive integration of omics data with disease phenotypes is offering a new window into the cell functionality. The minimum dominating set (MDS) approach has rapidly emerged as a promising algorithmic method to analyze complex biological networks integrated with human disorders, which can be composed of a variety of omics data, from proteomics and transcriptomics to metabolomics. Here we review the main theoretical foundations of the methodology and the key algorithms, and examine the recent applications in which biological systems are analyzed by using the MDS approach.

Citations

Nov 12, 2019·Briefings in Bioinformatics·Wei-Feng GuoLuonan Chen
Nov 13, 2019·Current Pharmaceutical Design·Shogo NakashimaTatsuya Akutsu
Apr 25, 2017·Nature Communications·Isaac KlicksteinFrancesco Sorrentino
Aug 4, 2018·Journal of Computational Biology : a Journal of Computational Molecular Cell Biology·Yu BaoTatsuya Akutsu
Apr 7, 2018·BMC Systems Biology·Sang-Mok ChooKwang-Hyun Cho
Sep 3, 2016·Scientific Reports·Yi-Fan Sun, Hai-Jun Zhou
Apr 9, 2021·PLoS Computational Biology·Motoki KajiwaraMasanori Shimono
May 29, 2021·IET Systems Biology·Adel A AlofairiIbrahim E Elsemman
Oct 9, 2018··Kaiwen WuHongfu Liu

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