An advanced strategy for integration of biological measurement data

Hiroshi Masuya; Georgios V. Gkoutos; Nobuhiko Tanaka; Kazunori Waki; Yoshihiro Okuda; Tatsuya Kushida; Norio Kobayashi; Koji Doi; Kouji Kozaki; Robert Hoehndorf; Shigeharu Wakana; Tetsuro Toyoda; Riichiro Mizoguchi

An advanced strategy for integration of biological measurement data

Hiroshi Masuya, Georgios V. Gkoutos, Nobuhiko Tanaka, Kazunori Waki, Yoshihiro Okuda, Tatsuya Kushida, Norio Kobayashi, Koji Doi, Kouji Kozaki, Robert Hoehndorf, Shigeharu Wakana, Tetsuro Toyoda, Riichiro Mizoguchi

Research output: Contribution to journal › Conference article › peer-review

13 Scopus citations

Abstract

Aiming at integration of measurement data across various biological experiments, we investigated a methodology for expanding the Phenotypic Quality Ontology (PATO), commonly used for descriptions of biological phenotypes. based on the YAMATO top-level ontology. The mapping of ontology terms from PATO to the YAMATO framework brings several benefits, including: introduction of a classification of quality values to represent measurement scales; distinction of different contexts in which comparisons of ordinal values are made: and establishment of interoperability of quality description formalisms based on different top-level ontologies. In this study, we propose an ontological basis for integrating cross-species and cross-experimental biological measurement data.

Original language	English (US)
Pages (from-to)	79-86
Number of pages	8
Journal	CEUR Workshop Proceedings
Volume	833
State	Published - 2011
Externally published	Yes
Event	2nd International Conference on Biomedical Ontology, ICBO 2011 - Buffalo, NY, United States Duration: Jul 26 2011 → Jul 30 2011

Keywords

Interoperability
Phenotype
Quality
Top-level ontology

ASJC Scopus subject areas

General Computer Science

Cite this

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title = "An advanced strategy for integration of biological measurement data",

abstract = "Aiming at integration of measurement data across various biological experiments, we investigated a methodology for expanding the Phenotypic Quality Ontology (PATO), commonly used for descriptions of biological phenotypes. based on the YAMATO top-level ontology. The mapping of ontology terms from PATO to the YAMATO framework brings several benefits, including: introduction of a classification of quality values to represent measurement scales; distinction of different contexts in which comparisons of ordinal values are made: and establishment of interoperability of quality description formalisms based on different top-level ontologies. In this study, we propose an ontological basis for integrating cross-species and cross-experimental biological measurement data.",

keywords = "Interoperability, Phenotype, Quality, Top-level ontology",

author = "Hiroshi Masuya and Gkoutos, {Georgios V.} and Nobuhiko Tanaka and Kazunori Waki and Yoshihiro Okuda and Tatsuya Kushida and Norio Kobayashi and Koji Doi and Kouji Kozaki and Robert Hoehndorf and Shigeharu Wakana and Tetsuro Toyoda and Riichiro Mizoguchi",

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journal = "CEUR Workshop Proceedings",

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note = "2nd International Conference on Biomedical Ontology, ICBO 2011 ; Conference date: 26-07-2011 Through 30-07-2011",

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TY - JOUR

T1 - An advanced strategy for integration of biological measurement data

AU - Masuya, Hiroshi

AU - Gkoutos, Georgios V.

AU - Tanaka, Nobuhiko

AU - Waki, Kazunori

AU - Okuda, Yoshihiro

AU - Kushida, Tatsuya

AU - Kobayashi, Norio

AU - Doi, Koji

AU - Kozaki, Kouji

AU - Hoehndorf, Robert

AU - Wakana, Shigeharu

AU - Toyoda, Tetsuro

AU - Mizoguchi, Riichiro

PY - 2011

Y1 - 2011

N2 - Aiming at integration of measurement data across various biological experiments, we investigated a methodology for expanding the Phenotypic Quality Ontology (PATO), commonly used for descriptions of biological phenotypes. based on the YAMATO top-level ontology. The mapping of ontology terms from PATO to the YAMATO framework brings several benefits, including: introduction of a classification of quality values to represent measurement scales; distinction of different contexts in which comparisons of ordinal values are made: and establishment of interoperability of quality description formalisms based on different top-level ontologies. In this study, we propose an ontological basis for integrating cross-species and cross-experimental biological measurement data.

AB - Aiming at integration of measurement data across various biological experiments, we investigated a methodology for expanding the Phenotypic Quality Ontology (PATO), commonly used for descriptions of biological phenotypes. based on the YAMATO top-level ontology. The mapping of ontology terms from PATO to the YAMATO framework brings several benefits, including: introduction of a classification of quality values to represent measurement scales; distinction of different contexts in which comparisons of ordinal values are made: and establishment of interoperability of quality description formalisms based on different top-level ontologies. In this study, we propose an ontological basis for integrating cross-species and cross-experimental biological measurement data.

KW - Interoperability

KW - Phenotype

KW - Quality

KW - Top-level ontology

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M3 - Conference article

AN - SCOPUS:84891938982

SN - 1613-0073

VL - 833

SP - 79

EP - 86

JO - CEUR Workshop Proceedings

JF - CEUR Workshop Proceedings

T2 - 2nd International Conference on Biomedical Ontology, ICBO 2011

Y2 - 26 July 2011 through 30 July 2011

ER -

An advanced strategy for integration of biological measurement data

Abstract

Keywords

ASJC Scopus subject areas

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