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May 2, 2026

PhyloSystemX: Enhancing the Analysis of Interaction Networks.

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Authors

HBHugo BonnefousCentre National de la Recherche ScientifiqueYZYu ZhangCentre National de la Recherche ScientifiquePLPhilippe LopezCentre National de la Recherche Scientifique

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Overview

Randomized trial enhances analysis of evolutionary histories in biological interaction networks, indicating new insights.

Key Points

  • The aim is to develop a computational tool that reconstructs ancestral biological interaction networks using phylogenetic data.
  • Integration of phylogenetic species trees with modern interaction data.
  • Implementation of parsimony-based algorithms (Dollo and Sankoff adjusted algorithm).
  • Analysis of various network types, including protein-protein interactions and gene co-expression.
  • PhyloSystemX successfully infers ancestral vertices and their interactions across evolutionary time.
  • Identifies evolutionarily conserved functional modules and lineage-specific innovations.
  • Addresses limitations of existing tools by analyzing any network with homology identifiers.

Cite This Study

Bonnefous et al. (2026) studied this question.

synapsesocial.com/papers/69f5945c71405d493afff32fhttps://doi.org/10.1007/978-1-0716-4836-0_5
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