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Hierarchical Feature Extraction from Large Sequence Data by Deep Learning

Research Project

Project/Area Number 26330328
Research Category

Grant-in-Aid for Scientific Research (C)

Allocation TypeMulti-year Fund
Section一般
Research Field Life / Health / Medical informatics
Research InstitutionKanazawa University

Principal Investigator

SATOU Kenji  金沢大学, 電子情報学系, 教授 (10215783)

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: ¥1,170,000 (Direct Cost: ¥900,000、Indirect Cost: ¥270,000)
Fiscal Year 2014: ¥2,210,000 (Direct Cost: ¥1,700,000、Indirect Cost: ¥510,000)
Keywordsテキスト分類 / 畳み込みニューラルネットワーク / スプライス部位 / プロモータ / 単語埋め込み / 次世代シーケンサ / ゲノム配列決定 / ヒストン修飾 / プロモータ配列 / バイオインフォマティクス / ディープラーニング
Outline of Final Research Achievements

In the field of biological sequence analysis including DNA and amino acid sequence analysis, traditional methods are highly dependent on the knowledge specific to molecular biology, so their ability is limited to the discovery of features easily predicted from domain-specific knowledge. In this study, it is shown that by using various machine learning algorithms including deep learning, it is possible to extract novel and hierarchical features from large sequence data.

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 2017 2016

All Journal Article (3 results) (of which Peer Reviewed: 3 results,  Open Access: 3 results,  Acknowledgement Compliant: 2 results)

  • [Journal Article] Combined Use of k-Mer Numerical Features and Position-Specific Categorical Features in Fixed-Length DNA Sequence Classification2017

    • Author(s)
      Phan,D., Nguyen,N.G., Lumbanraja,F.R., Faisal,M.R., Abapihi,B., Purnama,B., Delimayanti,M.K., Kubo,M., Satou,K.
    • Journal Title

      Journal of Biomedical Science and Engineering

      Volume: 10 Pages: 390-401

    • Related Report
      2017 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] DNA Sequence Classification by Convolutional Neural Network2016

    • Author(s)
      Nguyen,N.G., Tran,V.A., Ngo,D.L., Phan,D., Lumbanraja,F.R., Faisal,M.R., Abapihi,B., Kubo,M., Satou,K.
    • Journal Title

      Journal of Biomedical Science and Engineering

      Volume: 9 Issue: 05 Pages: 280-286

    • DOI

      10.4236/jbise.2016.95021

    • Related Report
      2016 Research-status Report 2015 Research-status Report
    • Peer Reviewed / Open Access / Acknowledgement Compliant
  • [Journal Article] Application of Word Embedding to Drug Repositioning2016

    • Author(s)
      Ngo, D.L., Yamamoto, N., Tran, V.A., Nguyen, N.G., Phan, D., Lumbanraja, F.R, Kubo, M., Satou, K.
    • Journal Title

      Journal of Biomedical Science and Engineering

      Volume: 9 Issue: 01 Pages: 7-16

    • DOI

      10.4236/jbise.2016.91002

    • Related Report
      2015 Research-status Report
    • Peer Reviewed / Open Access / Acknowledgement Compliant

URL: 

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

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