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Development of fundamental technology for phenotype data integration in mouse and rat

Research Project

Project/Area Number 23300161
Research Category

Grant-in-Aid for Scientific Research (B)

Allocation TypeSingle-year Grants
Section一般
Research Field Laboratory animal science
Research InstitutionThe Institute of Physical and Chemical Research

Principal Investigator

MAUSUYA Hiroshi  独立行政法人理化学研究所, バイオリソースセンター, ユニットリーダー (40321814)

Co-Investigator(Kenkyū-buntansha) MIZOGUCHI Riichiro  北陸先端科学技術大学院大学, サービスサイエンス研究センター, 教授 (20116106)
KOZAKI Kouji  大阪大学, 産業科学研究所, 准教授 (00362624)
Co-Investigator(Renkei-kenkyūsha) WAKANA Shigeharu  独立行政法人理化学研究所, バイオリソースセンター, チームリーダー (90192434)
TAKADA Toyoyuki  国立遺伝学研究所, 大学共同利用機関等の部局等, 助教 (20356257)
MASHIMO Tomoji  京都大学, 医学(系)研究科(研究院), 准教授 (80397554)
Project Period (FY) 2011-04-01 – 2014-03-31
Project Status Completed (Fiscal Year 2013)
Budget Amount *help
¥20,150,000 (Direct Cost: ¥15,500,000、Indirect Cost: ¥4,650,000)
Fiscal Year 2013: ¥6,630,000 (Direct Cost: ¥5,100,000、Indirect Cost: ¥1,530,000)
Fiscal Year 2012: ¥7,540,000 (Direct Cost: ¥5,800,000、Indirect Cost: ¥1,740,000)
Fiscal Year 2011: ¥5,980,000 (Direct Cost: ¥4,600,000、Indirect Cost: ¥1,380,000)
Keywordsデータベース / 表現型 / 疾患 / マウス / ラット / バイオリソース / 情報統合 / オントロジー / 病態 / モデル動物 / 実験動物 / 疾患モデル動物 / 人工知能
Research Abstract

This study aimed to develop a data-integration technology to elucidate hidden relationships between phenotype data of experimental animals and human diseases. We developed an algorithm to relate measurement data to disease via multiple knowledge libraries (ontologies). This algorithm enables to build data base system which can explore 1) related diseases from animal phenotypes, and 2) animal phenotypes from diseases. In this system data of biological spices, criterions of phenotype assessment and disease are flexibly defined. It is expected that basic concept of this algorithm will be utilized in the development of the cross-spiecies database which elucidates phenotype-disease relationships from large-scale data set.

Report

(4 results)
  • 2013 Annual Research Report   Final Research Report ( PDF )
  • 2012 Annual Research Report
  • 2011 Annual Research Report
  • Research Products

    (59 results)

All 2014 2013 2012 2011 Other

All Journal Article (9 results) (of which Peer Reviewed: 7 results) Presentation (42 results) (of which Invited: 7 results) Book (4 results) Remarks (4 results)

  • [Journal Article] 遺伝学オントロジー2014

    • Author(s)
      桝屋啓志, 溝口理一郎
    • Journal Title

      人工知能学会論文誌

      Volume: 29(in press)

    • NAID

      130004433128

    • Related Report
      2013 Final Research Report
    • Peer Reviewed
  • [Journal Article] 遺伝学オントロジー2014

    • Author(s)
      桝屋啓志, 溝口理一郎
    • Journal Title

      人工知能

      Volume: 29

    • NAID

      130004433128

    • Related Report
      2013 Annual Research Report
    • Peer Reviewed
  • [Journal Article] PosMed : ranking genes and bioresources based on semantic web association study2013

    • Author(s)
      Makita Y, Kobayashi N, Yoshida Y, Doi K, Mochizuki Y, Nishikata K, Matsushima A, Takahashi S, Ishii M, Takatsuki T, Bhatia R, Khadbaatar Z, Watabe H, Masuya H, Toyoda T
    • Journal Title

      Nucl Acids Res

      Volume: 41 Issue: W1 Pages: W109-W114

    • DOI

      10.1093/nar/gkt474

    • Related Report
      2013 Annual Research Report 2013 Final Research Report
    • Peer Reviewed
  • [Journal Article] Pheno-Pub: a total support system for the publication of mouse phenotypic data on the web2013

    • Author(s)
      Suzuki T, Furuse T, Yamada I, Motegi H, Kozawa Y, Masuya H, Wakana S.
    • Journal Title

      Mamm. Genome

      Volume: 24 Issue: 11-12 Pages: 473-483

    • DOI

      10.1007/s00335-013-9482-y

    • Related Report
      2013 Annual Research Report 2013 Final Research Report
    • Peer Reviewed
  • [Journal Article] Epub ahead of print2013

    • Author(s)
      Toki H, Inoue M, Motegi H, Minowa O, Kanda H, Yamamoto N, Ikeda A, Karashima Y, Matsui J, Kaneda H, Miura I, Suzuki T, Wakana S, Masuya H, Gondo Y, Shiroishi T, Akiyama T, Yao R, Noda T
    • Journal Title

      Cancer Sci

      Volume: PMID: 23551873 Issue: 7 Pages: 937-944

    • DOI

      10.1111/cas.12161

    • Related Report
      2013 Final Research Report 2012 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Roles and Applications of Biomedical Ontologies in Experimental Animal Science2012

    • Author(s)
      Masuya H
    • Journal Title

      Experimental Animals

      Volume: 61 Issue: 4 Pages: 365-373

    • DOI

      10.1538/expanim.61.365

    • NAID

      10030800263

    • ISSN
      0007-5124, 1341-1357, 1881-7122
    • Related Report
      2013 Final Research Report 2012 Annual Research Report
  • [Journal Article] フェノーム統合データベース2012

    • Author(s)
      豊田哲郎, 桝屋啓志
    • Journal Title

      細胞工学

      Volume: 31 Pages: 240-243

    • Related Report
      2013 Final Research Report 2012 Annual Research Report
  • [Journal Article] Behavioral and neuromorphological characterization of a novel Tuba1 mutant mouse2012

    • Author(s)
      Furuse T., Yamada I., Kushida T., Masuya H., Ikuo Miura., Kaneda H., Kobayashi K., Wada Y.,Yuasa S., Wakana S
    • Journal Title

      Behavioral Brain Research

      Volume: 227 Issue: 1 Pages: 167-174

    • DOI

      10.1016/j.bbr.2011.11.002

    • Related Report
      2013 Final Research Report 2011 Annual Research Report
    • Peer Reviewed
  • [Journal Article] ENU-induced missense mutation in the C-propeptide coding region of Col2a1 creates a mouse model of platyspondylic lethal skeletal dysplasia, Torrance type2011

    • Author(s)
      Furuichi T, Masuya H, Murakami T, Nishida K, Nishimura G, Suzuki T, Imaizumi K, Kudo Y, Ohkawa K, Wakana S, Ikegawa S
    • Journal Title

      Mammalian genome

      Volume: 22 Issue: 5-6 Pages: 318-328

    • DOI

      10.1007/s00335-011-9329-3

    • Related Report
      2013 Final Research Report 2011 Annual Research Report
    • Peer Reviewed
  • [Presentation] マウス・ラットの表現型から関連疾患を探すデータベース2014

    • Author(s)
      桝屋啓志
    • Organizer
      第7回ラットリソースリサーチ研究会
    • Place of Presentation
      京都
    • Year and Date
      2014-01-31
    • Related Report
      2013 Final Research Report
  • [Presentation] Overview of current pipeline in RIKEN BioResource Center2013

    • Author(s)
      Masuya H
    • Organizer
      IMPC Phenotyping Workshop
    • Place of Presentation
      Toronto, Canada
    • Year and Date
      2013-10-28
    • Related Report
      2013 Final Research Report
  • [Presentation] コンテキストに依存した定性値を扱う生物表現型統合データベースの試作2013

    • Author(s)
      桝屋啓志, 古崎晃司, 大江和彦, 溝口理一郎
    • Organizer
      2013年度人工知能学会 全国大会
    • Place of Presentation
      富山
    • Year and Date
      2013-06-06
    • Related Report
      2013 Final Research Report
  • [Presentation] Examinations of Phenotyping Data in Japan Mouse Clinic2013

    • Author(s)
      桝屋啓志, 田中信彦, 鈴木智広, 若菜茂晴
    • Organizer
      第60回日本実験動物学会総会
    • Place of Presentation
      つくば
    • Year and Date
      2013-05-17
    • Related Report
      2013 Final Research Report
  • [Presentation] マウス・ラット表現型から疾患を推論するソフトウェアの開発2013

    • Author(s)
      桝屋啓志, 古崎晃司, 高田豊行, 真下知士, 若菜茂晴, 大江和彦, 溝口理一郎
    • Organizer
      第60回日本実験動物学会総会
    • Place of Presentation
      つくば
    • Year and Date
      2013-05-15
    • Related Report
      2013 Final Research Report
  • [Presentation] 網羅的マウス表現型解析データを用いたデータマイニング : ワークフローの検討2012

    • Author(s)
      田中信彦, 茂木浩未, 鈴木智広, 金田秀貴, 三浦郁生, 山田郁子, 古瀬民生, 小林喜美男, 土岐秀明, 井上麻紀, 美野輪治, 野田哲生, 若菜茂晴, 桝屋啓志
    • Organizer
      第35回日本分子生物学会年会
    • Place of Presentation
      福岡
    • Year and Date
      2012-12-14
    • Related Report
      2013 Final Research Report
  • [Presentation] 哺乳類バイオリソースのLinked Open Data データベースのアップデート2012

    • Author(s)
      桝屋啓志, 高月照江, 斎藤実香子, 松庫義弘, 蒔田由布子, 吉田有子, 望月芳樹,小林紀郎, 吉木淳, 中村幸夫, 豊田哲郎,小幡裕一
    • Organizer
      第35回日本分子生物学会年会
    • Place of Presentation
      福岡
    • Year and Date
      2012-12-12
    • Related Report
      2013 Final Research Report 2012 Annual Research Report
  • [Presentation] Development of Linked Open Data for bioresources2012

    • Author(s)
      Masuya H, Takatsuki T, Makita Y, Yoshida Y, Mochizuki Y, Kobayashi N, Yoshiki A, Nakamura Y, Toyoda T, Obata Y
    • Organizer
      JIST2012 : The 2nd Joint International Semantic Technology Conference
    • Place of Presentation
      奈良
    • Year and Date
      2012-12-03
    • Related Report
      2013 Final Research Report
  • [Presentation] A trial of the development of Linked Open Data (LOD) of bioresources2012

    • Author(s)
      Masuya H
    • Organizer
      ANRRC 2012 The 4th ANRRC International Meeting
    • Place of Presentation
      Jeju, Korea
    • Year and Date
      2012-10-19
    • Related Report
      2013 Final Research Report 2012 Annual Research Report
  • [Presentation] Internationally cooperative development of the informatics infrastructure for IMPC2012

    • Author(s)
      Masuya H
    • Organizer
      IMPC International Symposium in Tokyo
    • Place of Presentation
      東京
    • Year and Date
      2012-09-28
    • Related Report
      2013 Final Research Report
  • [Presentation] 遺伝子の意味を情報モデルとして記述する2012

    • Author(s)
      桝屋啓志, 溝口理一郎
    • Organizer
      日本遺伝学会第84回大会
    • Place of Presentation
      福岡
    • Year and Date
      2012-09-24
    • Related Report
      2013 Final Research Report 2012 Annual Research Report
  • [Presentation] An Ontology of Gene2012

    • Author(s)
      Masuya H, Mizoguchi R
    • Organizer
      ICBO & FOIS 2012
    • Place of Presentation
      Graz, Austria
    • Year and Date
      2012-07-23
    • Related Report
      2013 Final Research Report
  • [Presentation] マウス表現型の情報統合へ向けた研究2012

    • Author(s)
      桝屋啓志
    • Organizer
      第26回モロシヌス研究会
    • Place of Presentation
      東京
    • Year and Date
      2012-06-16
    • Related Report
      2013 Final Research Report 2012 Annual Research Report
  • [Presentation] 遺伝子のオントロジー2012

    • Author(s)
      桝屋啓志, 溝口理一郎
    • Organizer
      2012年度人工知能学会全国大会(第26回)
    • Place of Presentation
      山口
    • Year and Date
      2012-06-12
    • Related Report
      2013 Final Research Report
  • [Presentation] 理研BRC IMPC(国際マウス表現型解析コンソーシアム)参画計画3 -表現型解析情報の公開と統合2012

    • Author(s)
      桝屋啓志, 田中信彦, 脇和規, 高月照江,齋藤実香子, 小幡裕一
    • Organizer
      日本実験動物科学・技術九州 2012
    • Place of Presentation
      別府
    • Year and Date
      2012-05-26
    • Related Report
      2013 Final Research Report
  • [Presentation] マウス表現型の類似度解析ツールの開発 : ワークフローの検討2012

    • Author(s)
      田中信彦, 茂木浩未, 鈴木智広, 金田秀貴, 三浦郁生, 山田郁子, 古瀬民生, 小林喜美男, 土岐秀明, 井上麻紀, 美野輪治, 野田哲生, 若菜茂晴, 桝屋啓志
    • Organizer
      日本実験動物科学・技術 九州 2012
    • Place of Presentation
      別府
    • Year and Date
      2012-05-26
    • Related Report
      2013 Final Research Report
  • [Presentation] 日本マウスクリニック表現型情報公開サイト「Pheno-Pub」の改良2012

    • Author(s)
      鈴木智広, 古瀬民生, 小澤恵代, 山田郁子, 田中信彦, 桝屋啓志, 若菜茂晴
    • Organizer
      日本実験動物科学・技術 九州 2012
    • Place of Presentation
      別府
    • Year and Date
      2012-05-25
    • Related Report
      2013 Final Research Report
  • [Presentation] MUSDB : LIMS for Japan Mouse Clinic2012

    • Author(s)
      Masuya H
    • Organizer
      IMPC Informatics Workshop
    • Place of Presentation
      Washington DC, USA
    • Year and Date
      2012-05-23
    • Related Report
      2013 Final Research Report
  • [Presentation] The Ontological Representation of Genetics2012

    • Author(s)
      桝屋啓志
    • Organizer
      5th Interdisciplinary Ontology Conference(InterOntology12)
    • Place of Presentation
      東京
    • Year and Date
      2012-02-23
    • Related Report
      2013 Final Research Report
  • [Presentation] The Ontological Representation of Genetics2012

    • Author(s)
      桝屋啓志
    • Organizer
      5TH INTERDISCIPLINARY ONTOLOGY CONFERENCE (InterOntology12)
    • Place of Presentation
      Tokyo, Japan
    • Year and Date
      2012-02-23
    • Related Report
      2011 Annual Research Report
  • [Presentation] MUSDB: LIMS for Japan Mouse Clinic2012

    • Author(s)
      Hiroshi Masuya
    • Organizer
      IMPC Informatics Workshop
    • Place of Presentation
      Washington DC
    • Related Report
      2012 Annual Research Report
    • Invited
  • [Presentation] An Ontology of Gene2012

    • Author(s)
      Hiroshi Masuya, Riichiro Mizoguchi
    • Organizer
      7th International Conference on Biomedical Ontology
    • Place of Presentation
      Graz, Austria
    • Related Report
      2012 Annual Research Report
  • [Presentation] nternationally Cooperative Development of the Informatics Infrastructure for IMPC2012

    • Author(s)
      Hiroshi Masuya
    • Organizer
      IMPC International Symposium in Tokyo
    • Place of Presentation
      東京
    • Related Report
      2012 Annual Research Report
    • Invited
  • [Presentation] Development of Linked Open Data for bioresources2012

    • Author(s)
      Hiroshi Masuya, Terue Takatsuki, Yuko Makita, Yuko Yoshida, Yoshiki Mochizuki, Norio Kobayashi, Atsushi Yoshiki, Yukio Nakamura, Tetsuro Toyoda,Yuichi Obata
    • Organizer
      JIST2012: The 2nd Joint International Semantic Technology Conference
    • Place of Presentation
      奈良
    • Related Report
      2012 Annual Research Report
  • [Presentation] 理研BRC IMPC(国際マウス表現型解析コンソーシアム)参画計画3 -表現型解析情報の公開と統合-2012

    • Author(s)
      桝屋啓志、田中信彦、脇和規、高月照江、齋藤実香子、小幡裕一
    • Organizer
      日本実験動物科学・技術 九州 2012
    • Place of Presentation
      別府
    • Related Report
      2012 Annual Research Report
  • [Presentation] 日本マウスクリニック表現型情報公開サイト「Pheno-Pub」の改良2012

    • Author(s)
      鈴木智広、古瀬民生、小澤恵代、山田郁子、田中信彦、桝屋啓志、若菜茂晴
    • Organizer
      日本実験動物科学・技術 九州 2012
    • Place of Presentation
      別府
    • Related Report
      2012 Annual Research Report
  • [Presentation] マウス表現型の類似度解析ツールの開発:ワークフローの検討2012

    • Author(s)
      田中信彦、茂木浩未、鈴木智広、金田秀貴、三浦郁生、山田郁子、古瀬民生、小林喜美男、土岐秀明、井上麻紀、美野輪治、野田哲生、若菜茂晴、桝屋啓志
    • Organizer
      日本実験動物科学・技術 九州 2012
    • Place of Presentation
      別府
    • Related Report
      2012 Annual Research Report
  • [Presentation] 遺伝子のオントロジー2012

    • Author(s)
      桝屋啓志、溝口理一郎
    • Organizer
      2012年度 人工知能学会 全国大会(第26回)
    • Place of Presentation
      山口
    • Related Report
      2012 Annual Research Report
  • [Presentation] 網羅的マウス表現型解析データを用いたデータマイニング:ワークフローの検討2012

    • Author(s)
      田中信彦, 茂木浩未, 鈴木智広, 金田秀貴, 三浦 郁生, 山田郁子, 古瀬民生, 小林喜美男, 土岐 秀明, 井上麻紀, 美野輪治, 野田哲生, 若菜茂晴, 桝屋啓志
    • Organizer
      第35回日本分子生物学会年会
    • Place of Presentation
      福岡
    • Related Report
      2012 Annual Research Report
  • [Presentation] Semantic Web 技術を利用した哺乳類バイオリソースのデータベース2011

    • Author(s)
      Masuya H
    • Organizer
      日本分子生物学会第34回年会
    • Place of Presentation
      横浜
    • Year and Date
      2011-12-15
    • Related Report
      2013 Final Research Report
  • [Presentation] Semantic Web技術を利用した哺乳類バイオリソースのデータベース2011

    • Author(s)
      Hiroshi Masuya
    • Organizer
      日本分子生物学会第34回年会
    • Place of Presentation
      横浜
    • Year and Date
      2011-12-15
    • Related Report
      2011 Annual Research Report
  • [Presentation] 遺伝学オントロジーを基盤にしたバイオリソース情報統合2011

    • Author(s)
      桝屋啓志
    • Organizer
      日本遺伝学会第83回大会
    • Place of Presentation
      京都
    • Year and Date
      2011-09-22
    • Related Report
      2013 Final Research Report 2011 Annual Research Report
  • [Presentation] An Advanced Strategy for Integration of Biological Measurement Data2011

    • Author(s)
      Masuya H
    • Organizer
      International Conference on Biomedical Ontology
    • Place of Presentation
      Buffalo, USA
    • Year and Date
      2011-07-29
    • Related Report
      2013 Final Research Report 2011 Annual Research Report
  • [Presentation] マウス・ラットのフェノーム情報統合へ向けて2011

    • Author(s)
      桝屋啓志
    • Place of Presentation
      新潟
    • Year and Date
      2011-07-08
    • Related Report
      2013 Final Research Report 2011 Annual Research Report
  • [Presentation] Recent progress of IT in JMC and AMPC, 1st Asian Mouse Phenotyping Consortium Council Meeting2011

    • Author(s)
      Masuya H
    • Organizer
      1st Asian Mouse Phenotyping Consortium Council Meeting
    • Place of Presentation
      Seoul, Korea
    • Year and Date
      2011-06-13
    • Related Report
      2013 Final Research Report
    • Invited
  • [Presentation] Recent progress of IT in JMC and AMPC, 1st Asian Mouse Phenotyping Consortium Council Meeting2011

    • Author(s)
      Hiroshi Masuya
    • Organizer
      1st Asian Mouse Phenotyping Consortium Council Meeting
    • Place of Presentation
      Seoul, Korea(招待講演)
    • Year and Date
      2011-06-13
    • Related Report
      2011 Annual Research Report
  • [Presentation] マウスでの表現型情報の国際的統合の動向について2011

    • Author(s)
      桝屋啓志
    • Organizer
      第58回日本実験動物学会総会
    • Place of Presentation
      東京
    • Year and Date
      2011-05-26
    • Related Report
      2013 Final Research Report
    • Invited
  • [Presentation] マウスでの表現型情報の国際的統合の動向について2011

    • Author(s)
      桝屋啓志
    • Organizer
      第58回日本実験動物学会総会
    • Place of Presentation
      東京(招待講演)
    • Year and Date
      2011-05-26
    • Related Report
      2011 Annual Research Report
  • [Presentation] マウス・ラット表現型から疾患を推論するソフトウェアの開発

    • Author(s)
      桝屋啓志、古崎晃司、高田豊行、真下知士、若菜茂晴、大江和彦、溝口理一郎
    • Organizer
      第60回日本実験動物学会総会
    • Place of Presentation
      つくば国際会議場(茨城県つくば市)
    • Related Report
      2013 Annual Research Report
  • [Presentation] Examinations of Phenotyping Data in Japan Mouse Clinic

    • Author(s)
      桝屋啓志、田中信彦、鈴木智広、若菜茂晴
    • Organizer
      第60回日本実験動物学会総会
    • Place of Presentation
      つくば国際会議場(茨城県つくば市)
    • Related Report
      2013 Annual Research Report
    • Invited
  • [Presentation] Overview of current pipeline in RIKEN BioResource Center

    • Author(s)
      Hiroshi Masuya
    • Organizer
      IMPC Phenotyping Workshop
    • Place of Presentation
      Toronto, Canada
    • Related Report
      2013 Annual Research Report
    • Invited
  • [Presentation] マウス・ラットの表現型から関連疾患を探すデータベース

    • Author(s)
      桝屋啓志
    • Organizer
      第7回ラットリソースリサーチ研究会
    • Place of Presentation
      京都大学(京都府京都市)
    • Related Report
      2013 Annual Research Report
    • Invited
  • [Book] 表現型データの国際標準化とデータの利用 (書名:論文ができてしまう!疾患モデルマウス表現型解析指南)2012

    • Author(s)
      桝屋啓志
    • Publisher
      中山書店
    • Related Report
      2013 Final Research Report
  • [Book] 第三節 バイオインフォマティクス(書名:生物機能モデルと新しいリソース・リサーチツール,series モデル動物利用マニュアル)2012

    • Author(s)
      桝屋啓志
    • Publisher
      エル・アイ・シー
    • Related Report
      2013 Final Research Report
  • [Book] 表現型データの国際標準化とデータの利用(書名:論文ができてしまう!疾患モデルマウス表現型解析指南)2012

    • Author(s)
      桝屋啓志
    • Publisher
      中山書店
    • Related Report
      2011 Annual Research Report
  • [Book] 第三節、バイオインフォマティクス(書名:生物機能モデルと新しいリソース・リサーチツール、seriesモデル動物利用マニュアル)2012

    • Author(s)
      桝屋啓志
    • Publisher
      エル・アイ・シー
    • Related Report
      2011 Annual Research Report
  • [Remarks] PhenosSITE

    • URL

      http://ja.brc.riken.jp/lab/bpmp/index_j.html

    • Related Report
      2013 Final Research Report
  • [Remarks] PATO2YAMATO オントロジー

    • URL

      http://ja.brc.riken.jp/lab/bpmp/ontology/ontology_pato2yato_j.html

    • Related Report
      2013 Final Research Report
  • [Remarks]

    • URL

      http://www.brc.riken.jp/lab/bpmp/index_j.html

    • Related Report
      2011 Annual Research Report
  • [Remarks]

    • Related Report
      2011 Annual Research Report

URL: 

Published: 2011-04-06   Modified: 2019-07-29  

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