• Search Research Projects
  • Search Researchers
  • How to Use
  1. Back to previous page

Extracting Biologically Interesting Metadata from Full-Text Papers

Research Project

Project/Area Number 26330343
Research Category

Grant-in-Aid for Scientific Research (C)

Allocation TypeMulti-year Fund
Section一般
Research Field Life / Health / Medical informatics
Research Institution大学共同利用機関法人情報・システム研究機構(機構本部施設等)

Principal Investigator

Yamamoto Yasunori  大学共同利用機関法人情報・システム研究機構(機構本部施設等), データサイエンス共同利用基盤施設, 特任准教授 (50470076)

Co-Investigator(Kenkyū-buntansha) 川島 秀一  大学共同利用機関法人情報・システム研究機構(機構本部施設等), データサイエンス共同利用基盤施設, 特任助教 (50314274)
片山 俊明  大学共同利用機関法人情報・システム研究機構(機構本部施設等), データサイエンス共同利用基盤施設, 特任助教 (60396869)
岡本 忍  大学共同利用機関法人情報・システム研究機構(機構本部施設等), データサイエンス共同利用基盤施設, 特任准教授 (90623893)
Project Period (FY) 2014-04-01 – 2018-03-31
Project Status Completed (Fiscal Year 2017)
Budget Amount *help
¥4,680,000 (Direct Cost: ¥3,600,000、Indirect Cost: ¥1,080,000)
Fiscal Year 2016: ¥1,300,000 (Direct Cost: ¥1,000,000、Indirect Cost: ¥300,000)
Fiscal Year 2015: ¥1,690,000 (Direct Cost: ¥1,300,000、Indirect Cost: ¥390,000)
Fiscal Year 2014: ¥1,690,000 (Direct Cost: ¥1,300,000、Indirect Cost: ¥390,000)
Keywordsテキストマイニング / 微生物ゲノム / セマンティックウェブ / マニュアルアノテーション / 論文全文 / オープンアクセス / 文献全文 / 微生物 / ゲノム / NER / バクテリア
Outline of Final Research Achievements

Accompanied with the sheer increase of genome papers, we need an automatic acquisition system of biological knowledge from full papers. Moreover, several relevant datasets are scattered throughout multiple institutions, and biologically interesting analyses need to use them in an integrated manner. As for the microbe research, habitat environments and sampling locations are among the relevant data to be extracted. In addition, the Semantic Web technologies have been adopted by major biological institutions such as National Center for Biotechnology Information (NCBI) or European Bioinformatics Institute (EBI). In this situation, we built a manually annotated corpus and an automatic extraction system using text mining technologies. We use Resource Description Framework (RDF) to express the extracted knowledge, and are publishing it as Linked Open Data (LOD) to be efficiently and effectively used with other relevant datasets in an integrated manner.

Report

(5 results)
  • 2017 Annual Research Report   Final Research Report ( PDF )
  • 2016 Research-status Report
  • 2015 Research-status Report
  • 2014 Research-status Report

Research Products

(3 results)

All 2018 2016 Other

All Presentation (2 results) (of which Int'l Joint Research: 2 results) Remarks (1 results)

  • [Presentation] Towards Making Knowledge in Literature LOD2018

    • Author(s)
      Yasunori Yamamoto, Shinobu Okamoto, Shuichi Kawashima, Toshiaki Katayama
    • Organizer
      Biocuration 2018
    • Related Report
      2017 Annual Research Report
    • Int'l Joint Research
  • [Presentation] Text2LOD: building high-quality linked open annotation data concerning biological interests2016

    • Author(s)
      Yasunori Yamamoto
    • Organizer
      Biocuration 2016
    • Place of Presentation
      ジュネーブ、スイス
    • Year and Date
      2016-04-10
    • Related Report
      2015 Research-status Report
    • Int'l Joint Research
  • [Remarks] TogoGenome

    • URL

      http://togogenome.org/

    • Related Report
      2017 Annual Research Report

URL: 

Published: 2014-04-04   Modified: 2019-03-29  

Information User Guide FAQ News Terms of Use Attribution of KAKENHI

Powered by NII kakenhi