Pathway Computation in Models Derived from Bio-science Text Sources

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

doi:10.1007/978-3-319-60438-1_42

Pathway Computation in Models Derived from Bio-science Text Sources

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

Department of Management, Society and Communication

Research output: Chapter in Book/Report/Conference proceeding › Article in proceedings › Research › peer-review

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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.

Original language	English
Title of host publication	Foundations of Intelligent Systems - 23rd International Symposium, ISMIS 2017, Proceedings : Proceedings of the 23rd International Symposium, ISMIS 2017
Editors	Marzena Kryszkiewicz , Annalisa Appice, Dominik Ślęzak, Henryk Rybinski, Andrzej Skowron, Zbigniew W. Raś
Number of pages	11
Volume	10352
Publisher	Springer
Publication date	2017
Pages	424-434
ISBN (Print)	9783319604374
ISBN (Electronic)	9783319604381
DOIs	https://doi.org/10.1007/978-3-319-60438-1_42
Publication status	Published - 2017
Event	The 23rd International Symposium on Methodologies for Intelligent Systems. ISMIS 2017 - Warsaw University of Technology, Warsaw, Poland Duration: 26 Jun 2017 → 29 Jun 2017 Conference number: 23 http://ismis2017.ii.pw.edu.pl/

Conference

Conference	The 23rd International Symposium on Methodologies for Intelligent Systems. ISMIS 2017
Number	23
Location	Warsaw University of Technology
Country/Territory	Poland
City	Warsaw
Period	26/06/2017 → 29/06/2017
Internet address	http://ismis2017.ii.pw.edu.pl/

Series	Lecture Notes in Computer Science
Volume	10352
ISSN	0302-9743

Keywords

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

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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, Proceedings: Proceedings of the 23rd International Symposium, ISMIS 2017 (Vol. 10352, pp. 424-434). Springer. https://doi.org/10.1007/978-3-319-60438-1_42

Andreasen, Troels ; Styltsvig, Henrik Bulskov ; Jensen, Per Anker et al. / Pathway Computation in Models Derived from Bio-science Text Sources. Foundations of Intelligent Systems - 23rd International Symposium, ISMIS 2017, Proceedings: Proceedings of the 23rd International Symposium, ISMIS 2017. editor / Marzena Kryszkiewicz ; Annalisa Appice ; Dominik Ślęzak ; Henryk Rybinski ; Andrzej Skowron ; Zbigniew W. Raś. Vol. 10352 Springer, 2017. pp. 424-434 (Lecture Notes in Computer Science, Vol. 10352).

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title = "Pathway Computation in Models Derived from Bio-science Text Sources",

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.",

keywords = "Semantic text processing in bio-informatics, Bio-models using natural logic and semantic graphs, Querying and pathway computation, Semantic text processing in bio-informatics, Bio-models using natural logic and semantic graphs, Querying and pathway computation",

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booktitle = "Foundations of Intelligent Systems - 23rd International Symposium, ISMIS 2017, Proceedings",

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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, Proceedings: Proceedings of the 23rd International Symposium, ISMIS 2017. vol. 10352, Springer, Lecture Notes in Computer Science, vol. 10352, pp. 424-434, The 23rd International Symposium on Methodologies for Intelligent Systems. ISMIS 2017, Warsaw, Poland, 26/06/2017. https://doi.org/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 et al.
Foundations of Intelligent Systems - 23rd International Symposium, ISMIS 2017, Proceedings: Proceedings of the 23rd International Symposium, ISMIS 2017. ed. / Marzena Kryszkiewicz ; Annalisa Appice; Dominik Ślęzak; Henryk Rybinski; Andrzej Skowron; Zbigniew W. Raś. Vol. 10352 Springer, 2017. p. 424-434 (Lecture Notes in Computer Science, Vol. 10352).

Research output: Chapter in Book/Report/Conference proceeding › Article in proceedings › Research › peer-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.

KW - Semantic text processing in bio-informatics

KW - Bio-models using natural logic and semantic graphs

KW - Querying and pathway computation

KW - Semantic text processing in bio-informatics

KW - Bio-models using natural logic and semantic graphs

KW - Querying and pathway computation

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BT - Foundations of Intelligent Systems - 23rd International Symposium, ISMIS 2017, Proceedings

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A2 - Ślęzak, Dominik

A2 - Rybinski, Henryk

A2 - Skowron, Andrzej

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PB - Springer

T2 - The 23rd International Symposium on Methodologies for Intelligent Systems. ISMIS 2017

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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, Proceedings: Proceedings of the 23rd International Symposium, ISMIS 2017. Vol. 10352. Springer. 2017. p. 424-434. (Lecture Notes in Computer Science, Vol. 10352). doi: 10.1007/978-3-319-60438-1_42