[HTML][HTML] Comparative analyses of gene co-expression networks: Implementations and applications in the study of evolution

K Ovens, BF Eames, I McQuillan - Frontiers in Genetics, 2021 - frontiersin.org
Similarities and differences in the associations of biological entities among species can
provide us with a better understanding of evolutionary relationships. Often the evolution of …

[HTML][HTML] Large-scale genome sequencing reveals the driving forces of viruses in microalgal evolution

DR Nelson, KM Hazzouri, KJ Lauersen, A Jaiswal… - Cell host & …, 2021 - cell.com
Being integral primary producers in diverse ecosystems, microalgal genomes could be
mined for ecological insights, but representative genome sequences are lacking for many …

[HTML][HTML] SANA: cross-species prediction of Gene Ontology GO annotations via topological network alignment

S Wang, GRS Atkinson, WB Hayes - NPJ systems biology and …, 2022 - nature.com
Topological network alignment aims to align two networks node-wise in order to maximize
the observed common connection (edge) topology between them. The topological alignment …

[HTML][HTML] Design and implementation of a new local alignment algorithm for multilayer networks

M Milano, PH Guzzi, M Cannataro - Entropy, 2022 - mdpi.com
Network alignment (NA) is a popular research field that aims to develop algorithms for
comparing networks. Applications of network alignment span many fields, from biology to …

Extended multitarget pharmacology of anticancer drugs

D Shi, F Khan, R Abagyan - Journal of chemical information and …, 2019 - ACS Publications
Multitarget pharmacology of small-molecule cancer drugs significantly contributes to their
mechanism of action, side effects, and emergence of drug resistance and opens ways to …

[HTML][HTML] Data-driven network alignment

S Gu, T Milenković - PloS one, 2020 - journals.plos.org
In this study, we deal with the problem of biological network alignment (NA), which aims to
find a node mapping between species' molecular networks that uncovers similar network …

[HTML][HTML] A protein-protein interaction network aligner study in the multi-objective domain

M Menor-Flores, MA Vega-Rodríguez - Computer Methods and Programs …, 2024 - Elsevier
Abstract Background and Objective The protein-protein interaction (PPI) network alignment
has proven to be an efficient technique in the diagnosis and prevention of certain diseases …

[HTML][HTML] Data-driven biological network alignment that uses topological, sequence, and functional information

S Gu, T Milenković - BMC bioinformatics, 2021 - Springer
Background Network alignment (NA) can transfer functional knowledge between species'
conserved biological network regions. Traditional NA assumes that it is topological similarity …

[图书][B] An introductory guide to aligning networks using sana, the simulated annealing network aligner

WB Hayes - 2020 - Springer
Sequence alignment has had an enormous impact on our understanding of biology,
evolution, and disease. The alignment of biological networks holds similar promise …

[图书][B] Novel Computational Approaches for Multi-network Analysis to Improve Protein Function Prediction

S Gu - 2022 - search.proquest.com
Networks can be used to model complex real-world systems from many domains, including
computational biology. A protein-protein interaction (PPI) network (PPIN), in which nodes …