Computing Pathways in Bio-Models Derived from Bio-Science Text Sources

Troels Andreasen, Henrik Bulskov, Jørgen Fischer Nilsson, Per Anker Jensen

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    Abstract

    This paper outlines a system, OntoScape, serving to accomplish complex inference tasks on knowledge bases and bio-models derived from life-science text corpora. The system applies so-called natural logic, a form of logic which is readable for humans. This logic affords ontological representations of complex terms appearing in the text sources. Along with logical propositions, the system applies a semantic graph representation facilitating calculation of bio-pathways. More generally, the system affords means of query answering appealing to general and domain specfic inference rules.
    Original languageEnglish
    Title of host publicationInternational Work-Conference on Bioinformatics and Biomedical Engineering, IWBBIO 2014, Granada, Spain, April 7-9, 2014
    EditorsIgnacio Rojas, Francisco Ortuno Guzman
    Number of pages10
    Place of PublicationSpanien
    PublisherCopicentro Editorial
    Publication date2015
    Pages217-226
    ISBN (Print)9788415814849
    Publication statusPublished - 2015
    Event2nd International Work-Conference on Bioinformatics and Biomedical Engineering - Granada, Spain
    Duration: 7 Apr 20149 Apr 2014
    Conference number: 2
    http://iwbbio.ugr.es/2014/

    Conference

    Conference2nd International Work-Conference on Bioinformatics and Biomedical Engineering
    Number2
    CountrySpain
    CityGranada
    Period07/04/201409/04/2014
    Internet address

    Keywords

    • Semantic text processing in bio-informatics
    • Bio-models using natural logic and semantic graphs
    • Pathway computation

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