A mini review of node centrality metrics in biological networks

M Wang, H Wang, H Zheng - International Journal of Network …, 2022 - pure.ulster.ac.uk
The diversity of nodes in a complex network causes each node to have varying significance,
and the important nodes often have a significant impact on the structure and function of the …

Structure and dynamics of molecular networks: a novel paradigm of drug discovery: a comprehensive review

P Csermely, T Korcsmáros, HJM Kiss, G London… - Pharmacology & …, 2013 - Elsevier
Despite considerable progress in genome-and proteome-based high-throughput screening
methods and in rational drug design, the increase in approved drugs in the past decade did …

A combinatorial approach to graphlet counting

T Hočevar, J Demšar - Bioinformatics, 2014 - academic.oup.com
Motivation: Small-induced subgraphs called graphlets are emerging as a possible tool for
exploration of global and local structure of networks and for analysis of roles of individual …

Control of complex networks requires both structure and dynamics

AJ Gates, LM Rocha - Scientific reports, 2016 - nature.com
The study of network structure has uncovered signatures of the organization of complex
systems. However, there is also a need to understand how to control them; for example …

Exploring the structure and function of temporal networks with dynamic graphlets

Y Hulovatyy, H Chen, T Milenković - Bioinformatics, 2015 - academic.oup.com
Motivation: With increasing availability of temporal real-world networks, how to efficiently
study these data? One can model a temporal network as a single aggregate static network …

Minimum dominating set-based methods for analyzing biological networks

JC Nacher, T Akutsu - Methods, 2016 - Elsevier
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 …

Predicting disease associations via biological network analysis

K Sun, JP Gonçalves, C Larminie, N Pržulj - BMC bioinformatics, 2014 - Springer
Background Understanding the relationship between diseases based on the underlying
biological mechanisms is one of the greatest challenges in modern biology and medicine …

Simultaneous optimization of both node and edge conservation in network alignment via WAVE

Y Sun, J Crawford, J Tang, T Milenković - Algorithms in Bioinformatics …, 2015 - Springer
Network alignment can be used to transfer functional knowledge between conserved
regions of different networks. Existing methods use a node cost function (NCF) to compare …

Dynamic networks reveal key players in aging

FE Faisal, T Milenković - Bioinformatics, 2014 - academic.oup.com
Motivation: Because susceptibility to diseases increases with age, studying aging gains
importance. Analyses of gene expression or sequence data, which have been …

Systems biology approach to stage-wise characterization of epigenetic genes in lung adenocarcinoma

MP Pradhan, A Desai, MJ Palakal - BMC systems biology, 2013 - Springer
Background Epigenetics refers to the reversible functional modifications of the genome that
do not correlate to changes in the DNA sequence. The aim of this study is to understand …