• CausalBuilder: bringing the MI2CAST causal interaction annotation standard to the curator 

      Touré, Vasundra; Zobolas, John; Kuiper, Martin; Vercruysse, Steven (Journal article; Peer reviewed, 2021)
      Molecular causal interactions are defined as regulatory connections between biological components. They are commonly retrieved from biological experiments and can be used for connecting biological molecules together to ...
    • CausalTAB: the PSI-MITAB 2.8 updated format for signalling data representation and dissemination 

      Perfetto, Livia; Acencio, Marcio Luis; Bradley, Glyn; Cesareni, Gianni; del Toro, Noemi; Fazekas, David; Hermjakob, Henning; Korcsmaros, Tamas; Kuiper, Martin; Lægreid, Astrid; Lo Surdo, Prisca; Lovering, Ruth C.; Orchard, Sandra; Porras, Pablo; Thomas, Paul; Touré, Vasundra; Zobolas, John; Licata, Luana (Peer reviewed; Journal article, 2019)
      Motivation Combining multiple layers of information underlying biological complexity into a structured framework represent a challenge in systems biology. A key task is the formalization of such information in models ...
    • emba: R package for analysis and visualization of biomarkers in boolean model ensembles 

      Zobolas, John; Kuiper, Martin; Flobak, Åsmund (Journal article; Peer reviewed, 2020)
    • UniBioDicts: Unified access to biological dictionaries 

      Zobolas, John; Touré, Vasundra; Kuiper, Martin; Vercruysse, Steven (Peer reviewed; Journal article, 2020)
      We present a set of software packages that provide uniform access to diverse biological vocabulary resources that are instrumental for current biocuration efforts and tools. The Unified Biological Dictionaries (UniBioDicts ...