PathWalks

PathWalks introduces a novel random-walks-based computational methodology designed to uncover and analyze the complex web of interactions within biological pathways associated with specific diseases. This tool operates by simulating a walker traversing a network of pathways directed by a disease-related map constructed from multi-source information pertaining to a given disease. The primary goal is to identify pathway communities that play significant roles in the disease's biology by highlighting the most frequently traversed trajectories, thereby suggesting strong relationships among these pathways.

Topic

Molecular interactions, pathways and networks;Pathology;Mapping;Endocrinology and metabolism;Microbial ecology

Detail

  • Operation: Expression profile pathway mapping;Network analysis;Metabolic pathway prediction

  • Software interface: Command-line user interface

  • Language: R

  • License: GNU Affero General Public License v3.0

  • Cost: -

  • Version name: -

  • Credit: State Scholarships Foundation, European Social Fund (ESF), Greek State, European Commission Research Executive Agency, and Bioinformatics European Research Area (ERA) Chair Position.

  • Input: -

  • Output: -

  • Contact: George M Spyrou georges@cing.ac.cy

  • Collection: -

  • Maturity: -

Publications

  • PathWalks: identifying pathway communities using a disease-related map of integrated information.
  • Karatzas E, et al. PathWalks: identifying pathway communities using a disease-related map of integrated information. PathWalks: identifying pathway communities using a disease-related map of integrated information. 2020; 36:4070-4079. doi: 10.1093/bioinformatics/btaa291
  • https://doi.org/10.1093/BIOINFORMATICS/BTAA291
  • PMID: 32369599
  • PMC: PMC7332569

Download and documentation

< Back to DB search