A survey on subgraph counting: concepts, algorithms, and applications to network motifs and graphlets

P Ribeiro, P Paredes, MEP Silva, D Aparicio… - ACM computing surveys …, 2021 - dl.acm.org
Computing subgraph frequencies is a fundamental task that lies at the core of several
network analysis methodologies, such as network motifs and graphlet-based metrics, which …

Network alignment

R Tang, Z Yong, S Jiang, X Chen, Y Liu, YC Zhang… - Physics Reports, 2025 - Elsevier
Complex networks are frequently employed to model physical or virtual complex systems.
When certain entities exist across multiple systems simultaneously, unveiling their …

[PDF][PDF] Current and future directions in network biology

M Zitnik, MM Li, A Wells, K Glass… - Bioinformatics …, 2024 - academic.oup.com
Network biology is an interdisciplinary field bridging computational and biological sciences
that has proved pivotal in advancing the understanding of cellular functions and diseases …

Network alignment and motif discovery in dynamic networks

P Cinaglia, M Cannataro - … Modeling Analysis in Health Informatics and …, 2022 - Springer
In the-omics era, bioinformatics technologies allowed the development of several
approaches useful to analyze biological systems. To provide a deep insight into a biological …

[HTML][HTML] Multilayer biological network alignment based on similarity computation via graph neural networks

P Cinaglia - Journal of Computational Science, 2024 - Elsevier
Multilayer networks prove highly effective in scenarios where objects of different entities
require a heterogeneity of types of interaction. Briefly, a multilayer network consists of nodes …

Temporal networks in biology and medicine: a survey on models, algorithms, and tools

MM Hosseinzadeh, M Cannataro, PH Guzzi… - … Modeling Analysis in …, 2022 - Springer
The use of static graphs for modelling and analysis of biological and biomedical data plays a
key role in biomedical research. However, many real-world scenarios present dynamic …

Aligning dynamic social networks: An optimization over dynamic graph autoencoder

L Sun, Z Zhang, F Wang, P Ji, J Wen… - … on Knowledge and …, 2022 - ieeexplore.ieee.org
Social network alignment, aligning different social networks on their common users, is
receiving increasing attention from both academic and industry. Most of the existing studies …

Heuristics and metaheuristics for biological network alignment: A review

L Ma, Z Shao, L Li, J Huang, S Wang, Q Lin, J Li… - Neurocomputing, 2022 - Elsevier
In recent years, with the emergence of big-data and high-throughput biological analyses,
massive biological data have been generated and accessed, and many heuristic and …

DNA: Dynamic social network alignment

L Sun, Z Zhang, P Ji, J Wen, S Su… - 2019 IEEE International …, 2019 - ieeexplore.ieee.org
Social network alignment, aligning different social networks on their common users, is
receiving dramatic attention from both academic and industry. All existing studies consider …

Cross-temporal snapshot alignment for dynamic networks

S Liang, S Tang, Z Meng… - IEEE Transactions on …, 2021 - ieeexplore.ieee.org
In this paper, we study the task of cross-temporal snapshot alignment for dynamic networks.
The goal of this task is to match equivalent nodes across temporal snapshots of a given …