ArticleScientific reports2015
Detection of composite communities in multiplex biological networks.
Article in Scientific reports, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 18 papers.
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Who cites it
18 citing papers in PubMed.
- SCONE: a subset-contrastive method for multi-omics network embedding.Briefings in bioinformatics · 2026Article
- Modeling roles and trade-offs in multiplex networks.Nature communications · 2026Article
- An integrative network-based approach to identify driving gene communities in chronic obstructive pulmonary disease.NPJ systems biology and applications · 2024Article
- SUBATOMIC: a SUbgraph BAsed mulTi-OMIcs clustering framework to analyze integrated multi-edge networks.BMC bioinformatics · 2022Article
- A multi-objective genetic algorithm to find active modules in multiplex biological networks.PLoS computational biology · 2021Article
- Systems biology in cardiovascular disease: a multiomics approach.Nature reviews. Cardiology · 2021Review
- Modularity in Biological Networks.Frontiers in genetics · 2021Review
- A propagation-based seed-centric local community detection for multilayer environment: The case study of colon adenocarcinoma.PloS one · 2021Article
- Robustness and lethality in multilayer biological molecular networks.Nature communications · 2020Article
- Identification of Key Components in Colon Adenocarcinoma Using Transcriptome to Interactome Multilayer Framework.Scientific reports · 2020Article
- Network-based piecewise linear regression for QSAR modelling.Journal of computer-aided molecular design · 2019Article
- Assessing diversity in multiplex networks.Scientific reports · 2019Article
- The multiplex network of human diseases.NPJ systems biology and applications · 2019Article
- Multilink communities of multiplex networks.PloS one · 2018Article
- Evaluating the Small-World-Ness of a Sampled Network: Functional Connectivity of Entorhinal-Hippocampal Circuitry.Scientific reports · 2016Article
- Detection of gene communities in multi-networks reveals cancer drivers.Scientific reports · 2015Article
- Quantifying dynamical spillover in co-evolving multiplex networks.Scientific reports · 2015Article
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Authors and funding
5 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The detection of community structure is a widely accepted means of investigating the principles governing biological systems. Recent efforts are exploring ways in which multiple data sources can be integrated to generate a more comprehensive model of cellular interactions, leading to the detection of more biologically relevant communities. In this work, we propose a mathematical programming model to cluster multiplex biological networks, i.e. multiple network slices, each with a different interaction type, to determine a single representative partition of composite communities. Our method, known as SimMod, is evaluated through its application to yeast networks of physical, genetic and co-expression interactions. A comparative analysis involving partitions of the individual networks, partitions of aggregated networks and partitions generated by similar methods from the literature highlights the ability of SimMod to identify functionally enriched modules. It is further shown that SimMod offers enhanced results when compared to existing approaches without the need to train on known cellular interactions.
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