Publications

A list of publications involved in across my experiences, in reversed chronological order.

2025

  1. The SPHN Schema Forge–transform healthcare semantics from human-readable to machine-readable by leveraging semantic web technologies
    Vasundra Touré, Deepak Unni, Philip Krauss, and 5 more authors
    Journal of Biomedical Semantics, 2025
  2. MIRAPIE: Proposing a Harmonising Framework as a Minimal Community Standard for Biomedical Provenance Documentation
    Judith AH Wodke, Kerstin Gierend, Marco Johns, and 8 more authors
    2025

2023

  1. FAIRification of health-related data using semantic web technologies in the Swiss Personalized Health Network
    Vasundra Touré, Philip Krauss, Kristin Gnodtke, and 8 more authors
    Scientific Data, 2023
  2. Bridging clinical and genomic knowledge: an extension of the SPHN RDF schema for seamless integration and FAIRification of omics data
    Eelke Van Der Horst, Deepak Unni, Femke Kopmels, and 6 more authors
    2023
  3. SPHN strategy to unravel the semantic drift between versions of standard terminologies
    Deepak Unni, Vasundra Touré, Philip Krauss, and 2 more authors
    2023

2022

  1. Mapping OHDSI OMOP Common Data Model and GA4GH Phenopackets for COVID-19 disease epidemics and analytics
    Núria Queralt Rosinach, Pablo Alarcón Moreno, Tiffany Callahan, and 8 more authors
    2022
  2. GraphML-SBGN bidirectional converter for metabolic networks
    Irina Balaur, Ludovic Roy, Vasundra Touré, and 2 more authors
    Journal of Integrative Bioinformatics, 2022
  3. Exploring the evolution of biochemical models at the network level
    Tom Gebhardt, Vasundra Touré, Dagmar Waltemath, and 2 more authors
    Plos one, 2022

2021

  1. A national, semantic-driven, three-pillar strategy to enable health data secondary usage interoperability for research within the Swiss personalized health network: methodological study
    Christophe Gaudet-Blavignac, Jean Louis Raisaro, Vasundra Touré, and 3 more authors
    JMIR medical informatics, 2021
  2. The SPHN ecosystem towards FAIR data
    Sabine Österle, Vasundra Touré, and Katrin Crameri
    2021
  3. DCC terminology service—an automated CI/CD pipeline for converting clinical and biomedical terminologies in graph format for the Swiss personalized health network
    Philip Krauss, Vasundra Touré, Kristin Gnodtke, and 2 more authors
    Applied Sciences, 2021
  4. The systems biology graphical notation: Current status and applications in systems medicine
    Vasundra Touré, Andreas Dräger, Augustin Luna, and 2 more authors
    2021
  5. Setting the basis of best practices and standards for curation and annotation of logical models in biology—highlights of the [BC] 2 2019 CoLoMoTo/SysMod Workshop
    Anna Niarakis, Martin Kuiper, Marek Ostaszewski, and 8 more authors
    Briefings in bioinformatics, 2021
  6. UniBioDicts: unified access to biological dictionaries
    John Zobolas, Vasundra Touré, Martin Kuiper, and 1 more author
    Bioinformatics, 2021
  7. CausalBuilder: bringing the MI2CAST causal interaction annotation standard to the curator
    Vasundra Touré, John Zobolas, Martin Kuiper, and 1 more author
    Database, 2021
  8. SBGN Bricks Ontology as a tool to describe recurring concepts in molecular networks
    Adrien Rougny, Vasundra Touré, John Albanese, and 6 more authors
    Briefings in bioinformatics, 2021
  9. The status of causality in biological databases: data resources and data retrieval possibilities to support logical modeling
    Vasundra Touré, Åsmund Flobak, Anna Niarakis, and 2 more authors
    Briefings in bioinformatics, 2021

2020

  1. A middle-out modeling strategy to extend a colon cancer logical model improves drug synergy predictions in epithelial-derived cancer cell lines
    Eirini Tsirvouli, Vasundra Touré, Barbara Niederdorfer, and 3 more authors
    Frontiers in molecular biosciences, 2020
  2. The minimum information about a molecular interaction causal statement (MI2CAST)
    Vasundra Touré, Steven Vercruysse, Marcio Luis Acencio, and 8 more authors
    Bioinformatics, 2020
  3. Systems biology graphical notation markup language (SBGNML) version 0.3
    Frank T Bergmann, Tobias Czauderna, Ugur Dogrusoz, and 6 more authors
    Journal of integrative bioinformatics, 2020
  4. Strategies to enhance logic modeling-based cell line-specific drug synergy prediction
    Barbara Niederdorfer, Vasundra Touré, Miguel Vazquez, and 4 more authors
    Frontiers in physiology, 2020
  5. The status of causality in biological databases for logical modeling: data resources and data retrieval possibilities
    Vasundra Touré, Åsmund Flobak, Anna Niarakis, and 2 more authors
    2020
  6. VSM-box: general-purpose interface for biocuration and knowledge representation
    Steven Vercruysse, John Zobolas, Vasundra Touré, and 2 more authors
    2020
  7. Systems biology graphical notation markup language (SBGNML) version 0.3
    A Luna, FT Bergmann, T Czauderna, and 6 more authors
    2020

2019

  1. Harmonizing semantic annotations for computational models in biology
    Maxwell Lewis Neal, Matthias König, David Nickerson, and 8 more authors
    Briefings in bioinformatics, 2019
  2. CausalTAB: the PSI-MITAB 2.8 updated format for signalling data representation and dissemination
    Livia Perfetto, Marcio Luis Acencio, Glyn Bradley, and 8 more authors
    Bioinformatics, 2019
  3. Systems biology graphical notation: process description language level 1 version 2.0
    Adrien Rougny, Vasundra Touré, Stuart Moodie, and 8 more authors
    Journal of integrative bioinformatics, 2019

2018

  1. Quick tips for creating effective and impactful biological pathways using the Systems Biology Graphical Notation
    Vasundra Touré, Nicolas Le Novère, Dagmar Waltemath, and 1 more author
    PLOS Computational Biology, 2018
  2. Evolution of computational models in BioModels Database and the Physiome Model Repository
    Martin Scharm, Tom Gebhardt, Vasundra Touré, and 4 more authors
    BMC Systems Biology, 2018

2016

  1. STON: exploring biological pathways using the SBGN standard and graph databases
    Vasundra Touré, Alexander Mazein, Dagmar Waltemath, and 5 more authors
    BMC bioinformatics, 2016
  2. Toward community standards and software for whole-cell modeling
    Dagmar Waltemath, Jonathan R Karr, Frank T Bergmann, and 8 more authors
    IEEE Transactions on Biomedical Engineering, 2016