Pathway Computation in Models Derived from Bio-Science Text Sources

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

Research output: Chapter in Book/Report/Conference proceedingArticle in proceedingsResearchpeer-review

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 specific inference rules.
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 specific inference rules.
LanguageEnglish
Title of host publicationFoundations of Intelligent Systems : 23rd International Symposium, ISMIS 2017, Warsaw, Poland, June 26-29, 2017, Proceedings
EditorsMarzena Kryszkiewicz, Annalisa Appice, Dominik Ślęzak, Henryk Rybinski, Andrzej Skowron, Zbigniew W. Raś
Place of PublicationCham
PublisherSpringer
Date2017
Pages424-434
ISBN (Print)978-3-319-60437-4
ISBN (Electronic)978-3-319-60438-1
DOIs
StatePublished - 2017
EventFoundations of intelligent systems: 23rd International Symposium - Warsaw, Poland
Duration: 26 Jun 201729 Jun 2017
Conference number: 23

Symposium

SymposiumFoundations of intelligent systems
Number23
CountryPoland
CityWarsaw
Period26/06/201729/06/2017
SeriesLecture Notes in Computer Science
Number10352
ISSN0302-9743
SeriesLecture notes in artificial intelligence
Number10352
ISSN0302-9743

Keywords

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

Cite this

Andreasen, T., Styltsvig, H. B., Jensen, P. A., & Nilsson, J. F. (2017). Pathway Computation in Models Derived from Bio-Science Text Sources. In M. Kryszkiewicz, A. Appice, D. Ślęzak, H. Rybinski, A. Skowron, & Z. W. Raś (Eds.), Foundations of Intelligent Systems : 23rd International Symposium, ISMIS 2017, Warsaw, Poland, June 26-29, 2017, Proceedings (pp. 424-434). Cham: Springer. Lecture Notes in Computer Science, No. 10352, Lecture notes in artificial intelligence, No. 10352, DOI: 10.1007/978-3-319-60438-1_42
Andreasen, Troels ; Styltsvig, Henrik Bulskov ; Jensen, Per Anker ; Nilsson, Jørgen Fischer. / Pathway Computation in Models Derived from Bio-Science Text Sources. Foundations of Intelligent Systems : 23rd International Symposium, ISMIS 2017, Warsaw, Poland, June 26-29, 2017, Proceedings . editor / Marzena Kryszkiewicz ; Annalisa Appice ; Dominik Ślęzak ; Henryk Rybinski ; Andrzej Skowron ; Zbigniew W. Raś. Cham : Springer, 2017. pp. 424-434 (Lecture Notes in Computer Science; No. 10352). (Lecture notes in artificial intelligence; No. 10352).
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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 specific inference rules.",
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Andreasen, T, Styltsvig, HB, Jensen, PA & Nilsson, JF 2017, Pathway Computation in Models Derived from Bio-Science Text Sources. in M Kryszkiewicz, A Appice, D Ślęzak, H Rybinski, A Skowron & ZW Raś (eds), Foundations of Intelligent Systems : 23rd International Symposium, ISMIS 2017, Warsaw, Poland, June 26-29, 2017, Proceedings . Springer, Cham, Lecture Notes in Computer Science, no. 10352, Lecture notes in artificial intelligence, no. 10352, pp. 424-434, Warsaw, Poland, 26/06/2017. DOI: 10.1007/978-3-319-60438-1_42

Pathway Computation in Models Derived from Bio-Science Text Sources. / Andreasen, Troels; Styltsvig, Henrik Bulskov; Jensen, Per Anker; Nilsson, Jørgen Fischer.

Foundations of Intelligent Systems : 23rd International Symposium, ISMIS 2017, Warsaw, Poland, June 26-29, 2017, Proceedings . ed. / Marzena Kryszkiewicz; Annalisa Appice; Dominik Ślęzak; Henryk Rybinski; Andrzej Skowron; Zbigniew W. Raś. Cham : Springer, 2017. p. 424-434.

Research output: Chapter in Book/Report/Conference proceedingArticle in proceedingsResearchpeer-review

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AB - 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 specific inference rules.

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Andreasen T, Styltsvig HB, Jensen PA, Nilsson JF. Pathway Computation in Models Derived from Bio-Science Text Sources. In Kryszkiewicz M, Appice A, Ślęzak D, Rybinski H, Skowron A, Raś ZW, editors, Foundations of Intelligent Systems : 23rd International Symposium, ISMIS 2017, Warsaw, Poland, June 26-29, 2017, Proceedings . Cham: Springer. 2017. p. 424-434. (Lecture Notes in Computer Science; No. 10352). (Lecture notes in artificial intelligence; No. 10352). Available from, DOI: 10.1007/978-3-319-60438-1_42