Community detection in networks: A multidisciplinary review

MA Javed, MS Younis, S Latif, J Qadir, A Baig - Journal of Network and …, 2018 - Elsevier
The modern science of networks has made significant advancement in the modeling of
complex real-world systems. One of the most important features in these networks is the …

Network propagation: a universal amplifier of genetic associations

L Cowen, T Ideker, BJ Raphael, R Sharan - Nature Reviews Genetics, 2017 - nature.com
Biological networks are powerful resources for the discovery of genes and genetic modules
that drive disease. Fundamental to network analysis is the concept that genes underlying the …

Technology opportunity analysis using hierarchical semantic networks and dual link prediction

Z Liu, J Feng, L Uden - Technovation, 2023 - Elsevier
Technology opportunity analysis using network analysis and link prediction has attracted the
interest of both academia and industry. However, there are several unresolved issues with …

A survey on computational models for predicting protein–protein interactions

L Hu, X Wang, YA Huang, P Hu… - Briefings in …, 2021 - academic.oup.com
Proteins interact with each other to play critical roles in many biological processes in cells.
Although promising, laboratory experiments usually suffer from the disadvantages of being …

[HTML][HTML] D-SCRIPT translates genome to phenome with sequence-based, structure-aware, genome-scale predictions of protein-protein interactions

S Sledzieski, R Singh, L Cowen, B Berger - Cell Systems, 2021 - cell.com
We combine advances in neural language modeling and structurally motivated design to
develop D-SCRIPT, an interpretable and generalizable deep-learning model, which predicts …

A modified DeepWalk method for link prediction in attributed social network

K Berahmand, E Nasiri, M Rostami, S Forouzandeh - Computing, 2021 - Springer
The increasing growth of online social networks has drawn researchers' attention to link
prediction and has been adopted in many fields, including computer sciences, information …

Gene ontology semantic similarity analysis using GOSemSim

G Yu - Stem Cell Transcriptional Networks: Methods and …, 2020 - Springer
The GOSemSim package, an R-based tool within the Bioconductor project, offers several
methods based on information content and graph structure for measuring semantic similarity …

From technology opportunities to ideas generation via cross-cutting patent analysis: Application of generative topographic mapping and link prediction

Z Liu, J Feng, L Uden - Technological Forecasting and Social Change, 2023 - Elsevier
Technology opportunity analysis (TOA) with ideas generation has been recognized an
important activity to remain competitive and lead the industry in the future. However, there …

SkipGNN: predicting molecular interactions with skip-graph networks

K Huang, C Xiao, LM Glass, M Zitnik, J Sun - Scientific reports, 2020 - nature.com
Molecular interaction networks are powerful resources for molecular discovery. They are
increasingly used with machine learning methods to predict biologically meaningful …

Progresses and challenges in link prediction

T Zhou - Iscience, 2021 - cell.com
Link prediction is a paradigmatic problem in network science, which aims at estimating the
existence likelihoods of nonobserved links, based on known topology. After a brief …