Logical Knowledge Representation of Regulatory Relations in Biomedical Pathways

Sine Zambach; Jens Ulrik Hansen

doi:10.1007/978-3-642-15020-3_17

Logical Knowledge Representation of Regulatory Relations in Biomedical Pathways

Sine Zambach, Jens Ulrik Hansen

Roskilde University

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

Abstract

Knowledge on regulatory relations, in for example regulatory pathways in biology, is used widely in experiment design by biomedical researchers and in systems biology. The knowledge has typically either been represented through simple graphs or through very expressive differential equation simulations of smaller parts of a pathway.
In this work we suggest a knowledge representation of the most basic relations in regulatory processes regulates, positively regulates and negatively regulates in logics based on a semantic analysis. We discuss the usage of these relations in biology and in articial intelligence for hypothesis development in drug discovery.

Original language	English
Title of host publication	Information Technology in Bio- and Medical Informatics, ITBAM 2010 : First International Conference, Bilbao, Spain, September 1-2, 2010. Proceedings
Editors	Sami Khuri, Lenka Lhotská, Nadia Pisanti
Number of pages	14
Place of Publication	Berlin
Publisher	Springer
Publication date	2010
Pages	186-200
ISBN (Print)	978364150197, 3642150195
ISBN (Electronic)	9783642150203
DOIs	https://doi.org/10.1007/978-3-642-15020-3_17
Publication status	Published - 2010
Externally published	Yes
Event	1st International Conference on Information Technology in Bio- and Medical Informatics 2010 - Bilbao, Spain Duration: 30 Aug 2010 → 3 Sept 2010 Conference number: 1

Conference

Conference	1st International Conference on Information Technology in Bio- and Medical Informatics 2010
Number	1
Country/Territory	Spain
City	Bilbao
Period	30/08/2010 → 03/09/2010

Series	Lecture Notes in Computer Science
Volume	6266
ISSN	0302-9743

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Zambach, S., & Hansen, J. U. (2010). Logical Knowledge Representation of Regulatory Relations in Biomedical Pathways. In S. Khuri, L. Lhotská, & N. Pisanti (Eds.), Information Technology in Bio- and Medical Informatics, ITBAM 2010: First International Conference, Bilbao, Spain, September 1-2, 2010. Proceedings (pp. 186-200). Springer. https://doi.org/10.1007/978-3-642-15020-3_17

Zambach, Sine ; Hansen, Jens Ulrik. / Logical Knowledge Representation of Regulatory Relations in Biomedical Pathways. Information Technology in Bio- and Medical Informatics, ITBAM 2010: First International Conference, Bilbao, Spain, September 1-2, 2010. Proceedings. editor / Sami Khuri ; Lenka Lhotská ; Nadia Pisanti. Berlin : Springer, 2010. pp. 186-200 (Lecture Notes in Computer Science, Vol. 6266).

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title = "Logical Knowledge Representation of Regulatory Relations in Biomedical Pathways",

abstract = "Knowledge on regulatory relations, in for example regulatory pathways in biology, is used widely in experiment design by biomedical researchers and in systems biology. The knowledge has typically either been represented through simple graphs or through very expressive differential equation simulations of smaller parts of a pathway.In this work we suggest a knowledge representation of the most basic relations in regulatory processes regulates, positively regulates and negatively regulates in logics based on a semantic analysis. We discuss the usage of these relations in biology and in articial intelligence for hypothesis development in drug discovery.",

author = "Sine Zambach and Hansen, {Jens Ulrik}",

year = "2010",

doi = "10.1007/978-3-642-15020-3_17",

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editor = "Sami Khuri and Lenka Lhotsk{\'a} and Nadia Pisanti",

booktitle = "Information Technology in Bio- and Medical Informatics, ITBAM 2010",

address = "Germany",

note = "1st International Conference on Information Technology in Bio- and Medical Informatics 2010 ; Conference date: 30-08-2010 Through 03-09-2010",

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Zambach, S & Hansen, JU 2010, Logical Knowledge Representation of Regulatory Relations in Biomedical Pathways. in S Khuri, L Lhotská & N Pisanti (eds), Information Technology in Bio- and Medical Informatics, ITBAM 2010: First International Conference, Bilbao, Spain, September 1-2, 2010. Proceedings. Springer, Berlin, Lecture Notes in Computer Science, vol. 6266, pp. 186-200, 1st International Conference on Information Technology in Bio- and Medical Informatics 2010, Bilbao, Spain, 30/08/2010. https://doi.org/10.1007/978-3-642-15020-3_17

Logical Knowledge Representation of Regulatory Relations in Biomedical Pathways. / Zambach, Sine; Hansen, Jens Ulrik.
Information Technology in Bio- and Medical Informatics, ITBAM 2010: First International Conference, Bilbao, Spain, September 1-2, 2010. Proceedings. ed. / Sami Khuri; Lenka Lhotská; Nadia Pisanti. Berlin: Springer, 2010. p. 186-200 (Lecture Notes in Computer Science, Vol. 6266).

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

TY - GEN

T1 - Logical Knowledge Representation of Regulatory Relations in Biomedical Pathways

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AB - Knowledge on regulatory relations, in for example regulatory pathways in biology, is used widely in experiment design by biomedical researchers and in systems biology. The knowledge has typically either been represented through simple graphs or through very expressive differential equation simulations of smaller parts of a pathway.In this work we suggest a knowledge representation of the most basic relations in regulatory processes regulates, positively regulates and negatively regulates in logics based on a semantic analysis. We discuss the usage of these relations in biology and in articial intelligence for hypothesis development in drug discovery.

U2 - 10.1007/978-3-642-15020-3_17

DO - 10.1007/978-3-642-15020-3_17

M3 - Article in proceedings

SN - 978364150197

SN - 3642150195

T3 - Lecture Notes in Computer Science

SP - 186

EP - 200

BT - Information Technology in Bio- and Medical Informatics, ITBAM 2010

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Zambach S, Hansen JU. Logical Knowledge Representation of Regulatory Relations in Biomedical Pathways. In Khuri S, Lhotská L, Pisanti N, editors, Information Technology in Bio- and Medical Informatics, ITBAM 2010: First International Conference, Bilbao, Spain, September 1-2, 2010. Proceedings. Berlin: Springer. 2010. p. 186-200. (Lecture Notes in Computer Science, Vol. 6266). doi: 10.1007/978-3-642-15020-3_17