Investigation of the fundamental strategy for interoperability of description of biological measurements

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

Investigation of the fundamental strategy for interoperability of description of biological measurements

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

Department of Computer Science

Research output: Chapter in Book/Report/Conference proceeding › Conference Proceeding (Non-Journal item)

Abstract

Aiming the facilitation of the advanced integration of measurement data across various biological experiments, we have investigated the fundamental methodology to expand the Phenotypic Quality Ontology (PATO) commonly used for descriptions of biological phenotypes with the framework of the Yet Another More Advanced Top-level Ontology (YAMATO). The mapping of ontology terms of PATO to YAMATO’s framework represents several advanced aspects such as the introduction of the classification of quality values to represent scales of measurements, the distinction of the different contexts of the comparison of ordinal values, and the establishment of the interoperability of quality description formalisms between different top-level ontologies. In this study, we propose a logical base to integrate cross-species and cross-experimental annotations of biological measurements.

Original language	English
Title of host publication	Proceedings of the Second International Conference on Biomedical Ontology
Publication status	Published - 01 Jul 2011
Event	2nd International Conference on Biomedical Ontology - Buffalo, United States of America Duration: 26 Jul 2011 → 30 Jul 2011

Conference

Conference	2nd International Conference on Biomedical Ontology
Country/Territory	United States of America
City	Buffalo
Period	26 Jul 2011 → 30 Jul 2011

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title = "Investigation of the fundamental strategy for interoperability of description of biological measurements",

abstract = "Aiming the facilitation of the advanced integration of measurement data across various biological experiments, we have investigated the fundamental methodology to expand the Phenotypic Quality Ontology (PATO) commonly used for descriptions of biological phenotypes with the framework of the Yet Another More Advanced Top-level Ontology (YAMATO). The mapping of ontology terms of PATO to YAMATO{\textquoteright}s framework represents several advanced aspects such as the introduction of the classification of quality values to represent scales of measurements, the distinction of the different contexts of the comparison of ordinal values, and the establishment of the interoperability of quality description formalisms between different top-level ontologies. In this study, we propose a logical base to integrate cross-species and cross-experimental annotations of biological measurements.",

author = "Hiroshi Masuya and Georgios Gkoutos 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",

year = "2011",

month = jul,

day = "1",

language = "English",

booktitle = "Proceedings of the Second International Conference on Biomedical Ontology",

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

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Masuya, H, Gkoutos, G, Tanaka, N, Waki, K, Okuda, Y, Kushida, T, Kobayashi, N, Doi, K, Kozaki, K, Hoehndorf, R, Wakana, S, Toyoda, T & Mizoguchi, R 2011, Investigation of the fundamental strategy for interoperability of description of biological measurements. in Proceedings of the Second International Conference on Biomedical Ontology. 2nd International Conference on Biomedical Ontology, Buffalo, United States of America, 26 Jul 2011.

TY - GEN

T1 - Investigation of the fundamental strategy for interoperability of description of biological measurements

AU - Masuya, Hiroshi

AU - Gkoutos, Georgios

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 - 2011/7/1

Y1 - 2011/7/1

N2 - Aiming the facilitation of the advanced integration of measurement data across various biological experiments, we have investigated the fundamental methodology to expand the Phenotypic Quality Ontology (PATO) commonly used for descriptions of biological phenotypes with the framework of the Yet Another More Advanced Top-level Ontology (YAMATO). The mapping of ontology terms of PATO to YAMATO’s framework represents several advanced aspects such as the introduction of the classification of quality values to represent scales of measurements, the distinction of the different contexts of the comparison of ordinal values, and the establishment of the interoperability of quality description formalisms between different top-level ontologies. In this study, we propose a logical base to integrate cross-species and cross-experimental annotations of biological measurements.

AB - Aiming the facilitation of the advanced integration of measurement data across various biological experiments, we have investigated the fundamental methodology to expand the Phenotypic Quality Ontology (PATO) commonly used for descriptions of biological phenotypes with the framework of the Yet Another More Advanced Top-level Ontology (YAMATO). The mapping of ontology terms of PATO to YAMATO’s framework represents several advanced aspects such as the introduction of the classification of quality values to represent scales of measurements, the distinction of the different contexts of the comparison of ordinal values, and the establishment of the interoperability of quality description formalisms between different top-level ontologies. In this study, we propose a logical base to integrate cross-species and cross-experimental annotations of biological measurements.

UR - http://hdl.handle.net/2160/11152

M3 - Conference Proceeding (Non-Journal item)

BT - Proceedings of the Second International Conference on Biomedical Ontology

T2 - 2nd International Conference on Biomedical Ontology

Y2 - 26 July 2011 through 30 July 2011

ER -

Investigation of the fundamental strategy for interoperability of description of biological measurements

Abstract

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