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Development of a Phenotype Recording and Mining System for Discovering Individuality

Planned Research

Project AreaIntegrative research toward elucidation of generative brain systems for individuality
Project/Area Number 16H06534
Research Category

Grant-in-Aid for Scientific Research on Innovative Areas (Research in a proposed research area)

Allocation TypeSingle-year Grants
Review Section Complex systems
Research InstitutionKyushu Institute of Technology

Principal Investigator

Shibata Tomohiro  九州工業大学, 大学院生命体工学研究科, 教授 (40359873)

Co-Investigator(Kenkyū-buntansha) 松本 惇平  富山大学, 学術研究部医学系, 助教 (00635287)
夏目 季代久  九州工業大学, 大学院生命体工学研究科, 教授 (30231492)
桝屋 啓志  国立研究開発法人理化学研究所, バイオリソース研究センター, 室長 (40321814)
Project Period (FY) 2016-06-30 – 2021-03-31
Project Status Completed (Fiscal Year 2021)
Budget Amount *help
¥68,380,000 (Direct Cost: ¥52,600,000、Indirect Cost: ¥15,780,000)
Fiscal Year 2020: ¥13,130,000 (Direct Cost: ¥10,100,000、Indirect Cost: ¥3,030,000)
Fiscal Year 2019: ¥13,130,000 (Direct Cost: ¥10,100,000、Indirect Cost: ¥3,030,000)
Fiscal Year 2018: ¥13,130,000 (Direct Cost: ¥10,100,000、Indirect Cost: ¥3,030,000)
Fiscal Year 2017: ¥13,130,000 (Direct Cost: ¥10,100,000、Indirect Cost: ¥3,030,000)
Fiscal Year 2016: ¥15,860,000 (Direct Cost: ¥12,200,000、Indirect Cost: ¥3,660,000)
Keywords脳・神経 / 計測工学 / 機械学習 / 情報工学
Outline of Final Research Achievements

For rodents such as mice, we have developed a markerless system that can record 3D information on individual gait and other body parts and track multiple individual details, including ultrasonic vocalizations and social behaviors as phenotypes for detecting individuality. The system was also developed for primates, especially for macaque monkeys in their natural environment, and is the first system of its kind in the world. The system will be used by researchers in Japan and overseas to collect large-scale data. To discover various aspects of "individuality" from this large-scale data in cooperation between researchers and machines, data mining algorithms such as data self-organization (visualization) algorithms and clustering were developed.

Academic Significance and Societal Importance of the Research Achievements

本研究は新学術領域「個性」創発脳の計画研究で、異分野の研究者が密接に連携することにより、集団における「個性」成立の法則やその意義を明らかにすることが大目的で、ヒトだけを対象にした従来の研究では扱うことが難しかった問題に関してもアプローチしました。本研究では、マウス、ラット、そしてマカクザルに関するマーカレス表現型記録システムを開発し、前者についてマウスやマカクザルのものについては世界に公開しました。また、データ分析手法も開発しました。今後、我々のツールが活用され、領域のデータシェアリングプラットフォームに多様なデータが蓄積され、解析され、「個性」研究が大きく進捗することが期待されます。

Report

(6 results)
  • 2021 Final Research Report ( PDF )
  • 2020 Annual Research Report
  • 2019 Annual Research Report
  • 2018 Annual Research Report
  • 2017 Annual Research Report
  • 2016 Annual Research Report
  • Research Products

    (51 results)

All 2021 2020 2019 2018 2017 Other

All Int'l Joint Research (2 results) Journal Article (9 results) (of which Int'l Joint Research: 3 results,  Peer Reviewed: 9 results,  Open Access: 8 results) Presentation (36 results) (of which Int'l Joint Research: 23 results,  Invited: 4 results) Book (1 results) Remarks (3 results)

  • [Int'l Joint Research] Omsk State Technical University(ロシア連邦)

    • Related Report
      2020 Annual Research Report
  • [Int'l Joint Research] Ateneo de Manila University(フィリピン)

    • Related Report
      2019 Annual Research Report
  • [Journal Article] Establishment and application of information resource of mutant mice in RIKEN BioResource Research Center2021

    • Author(s)
      Masuya Hiroshi、Usuda Daiki、Nakata Hatsumi、Yuhara Naomi、Kurihara Keiko、Namiki Yuri、Iwase Shigeru、Takada Toyoyuki、Tanaka Nobuhiko、Suzuki Kenta、Yamagata Yuki、Kobayashi Norio、Yoshiki Atsushi、Kushida Tatsuya
    • Journal Title

      Laboratory Animal Research

      Volume: 37 Issue: 1 Pages: 6-6

    • DOI

      10.1186/s42826-020-00068-8

    • Related Report
      2020 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Diurnal rhythm regulates the frequency of carbachol-induced beta oscillation via inhibitory neural system in rat hippocampus2021

    • Author(s)
      Shigemoto, M., Nakatsuka, H., Ohtubo, Y., Natsume, K.
    • Journal Title

      Cognitive Neurodynamics

      Volume: - Issue: 3 Pages: 507-518

    • DOI

      10.1007/s11571-021-09736-4

    • Related Report
      2020 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Effects of Gait Inducing Assist for Patients with Parkinson’s Disease on Double Support Phase During Gait2020

    • Author(s)
      Ai Higuchi, Junichiro Shiraishi, Yuichi Kurita, and Tomohiro Shibata
    • Journal Title

      Journal of Robotics and Mechatronics

      Volume: 32 Issue: 4 Pages: 798-811

    • DOI

      10.20965/jrm.2020.p0798

    • NAID

      130007888806

    • ISSN
      0915-3942, 1883-8049
    • Year and Date
      2020-08-20
    • Related Report
      2020 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] An Exploration of Blue PPG Signal Using a Novel Color Sensorbased PPG System2020

    • Author(s)
      Shchelkanova E, Shchelkanov A, Shchapova L,Shibata T
    • Journal Title

      2020 42nd Annual International Conference of the IEEE Engineering in Medicine & Biology Society

      Volume: - Pages: 4414-4420

    • DOI

      10.1109/embc44109.2020.9175745

    • Related Report
      2020 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Extraction of Nonlinear Synergies for Proportional and Simultaneous Estimation of Finger Kinematics2020

    • Author(s)
      Dviwedi, S.K., Ngeo, J.G., and Shibata, T.
    • Journal Title

      IEEE Transactions on Biomedical Engineering

      Volume: - Issue: 9 Pages: 1-1

    • DOI

      10.1109/tbme.2020.2967154

    • NAID

      120006841304

    • Related Report
      2019 Annual Research Report
    • Peer Reviewed
  • [Journal Article] An atlas of evidence-based phenotypic associations across the mouse phenome2020

    • Author(s)
      Tanaka,N., Masuya, H.
    • Journal Title

      Scientific Reports

      Volume: 10 Issue: 1 Pages: 1-15

    • DOI

      10.1038/s41598-020-60891-w

    • Related Report
      2019 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Primate Markerless Pose Estimation and Movement Analysis Using DeepLabCut2019

    • Author(s)
      Labuguen,R., Bardeloza, D,K., Blanco,N,S., Matsumoto,J., and Shibata,T.
    • Journal Title

      IEEE Explore

      Volume: - Pages: 297-300

    • DOI

      10.1109/iciev.2019.8858533

    • Related Report
      2019 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Identification of genetic elements in metabolism by high-throughput mouse phenotyping2018

    • Author(s)
      Rozman J. et al.
    • Journal Title

      Nat Commun.

      Volume: 9 Issue: 1 Pages: 288-288

    • DOI

      10.1038/s41467-017-01995-2

    • Related Report
      2017 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] The change of picrotoxin-induced epileptiform discharges to the beta oscillation by carbachol in rat hippocampal slices2017

    • Author(s)
      Hashimoto A, Sawada T, Natsume K.
    • Journal Title

      Biophysics and Physicobiology

      Volume: 14 Issue: 0 Pages: 137-146

    • DOI

      10.2142/biophysico.14.0_137

    • NAID

      130006068133

    • ISSN
      2189-4779
    • Related Report
      2017 Annual Research Report
    • Peer Reviewed / Open Access
  • [Presentation] Behavior and Emotional Modification at Latent Period of Rat Epilepsy Model2021

    • Author(s)
      Arai, H., Blanco, N.S., Labuguen,R., Shibata, T., Natsume, K
    • Organizer
      60th Annual Conference of the Society of Instrument and Control Engineers of Japan
    • Related Report
      2020 Annual Research Report
    • Int'l Joint Research
  • [Presentation] MacaquePose: A Novel “In the Wild” Macaque Monkey Pose Dataset for Markerless Motion Capture2021

    • Author(s)
      Labuguen,R., Matsumoto, J., Blanco, N.S., Nishimaru, H., Nishijo, H., Takada,M., Go,Y., Inoue, K., Shibata, T.
    • Organizer
      CV4Animals: Computer Vision for Animal Behavior Tracking and Modeling
    • Related Report
      2020 Annual Research Report
    • Int'l Joint Research
  • [Presentation] Multiple Monkey Pose Estimation Using OpenPose2021

    • Author(s)
      Blanco, N.S., Labuguen,R., Matsumoto, J., Go,Y., Inoue, K.,Shibata, T
    • Organizer
      International workshop (VAIB) in an international conference
    • Related Report
      2020 Annual Research Report
    • Int'l Joint Research
  • [Presentation] MacaquePose: a novel dataset for deep learning based for marker-less motion capture of macaque monkeys.2021

    • Author(s)
      Matsumoto, J.
    • Organizer
      First International Workshop on Research Methods in Animal Emotion Analysis
    • Related Report
      2020 Annual Research Report
    • Int'l Joint Research
  • [Presentation] USVCAM: a novel sound source localization system for rodent ultrasonic vocalizations.2021

    • Author(s)
      Kanno,K., Matsumoto, J., Kato, M., Shibata, T.
    • Organizer
      The 80th Fujiwara Seminar「Molecular and cellular mechanisms of brain systems generating individuality」
    • Related Report
      2020 Annual Research Report
    • Int'l Joint Research
  • [Presentation] The carbachol-induced beta oscillation causes the decrease in frequency by disinhibition at the midnight phase2021

    • Author(s)
      Shigemoto, M., Ohtubo, Y., Natsume, K.
    • Organizer
      Neuro2021
    • Related Report
      2020 Annual Research Report
    • Int'l Joint Research
  • [Presentation] Spontaneous activity of rat hippocampal slices during latent period in kainate model rat for epilepsy2021

    • Author(s)
      Arai, H., Natsume, K.
    • Organizer
      Neuro2021
    • Related Report
      2020 Annual Research Report
    • Int'l Joint Research
  • [Presentation] The relationships between disinhibition-induced epileptic discharges and high frequency oscillations in rat hippocampal slices2021

    • Author(s)
      Sawada, T., Maeda, R., Natsume, K
    • Organizer
      Neuro2021
    • Related Report
      2020 Annual Research Report
    • Int'l Joint Research
  • [Presentation] The relationship between generation of Carbachol induced β oscillation and high frequency oscillation in rat hippocampal slices2021

    • Author(s)
      Maeda, R.,Sawada, T., Natsume, K
    • Organizer
      Neuro2021
    • Related Report
      2020 Annual Research Report
    • Int'l Joint Research
  • [Presentation] Neural network based time zone classification allows circadian rhythm analysis2021

    • Author(s)
      Shigemoto, M., Natsume, K
    • Organizer
      2021 60th Annual Conference of the Society of Instrument and Control Engineers of Japan, SICE 202
    • Related Report
      2020 Annual Research Report
    • Int'l Joint Research
  • [Presentation] Performance Evaluation of Markerless 3D Skeleton Pose Estimates with Pop Dance Motion Sequence2020

    • Author(s)
      Labuguen,R.,Blanco, N.S.,Kogami, T.,Ingco, W,E,M., Shibata, T
    • Organizer
      2020 Joint 9th International Conference on Informatics, Electronics & Vision (ICIEV) and 2020 4th International Conference on Imaging, Vision & Pattern Recognition (icIVPR)
    • Related Report
      2020 Annual Research Report
    • Int'l Joint Research
  • [Presentation] An Exploration of Blue PPG Signal Using a Novel Color Sensorbased PPG System2020

    • Author(s)
      Shchelkanova, E., Shchelkanov, A., Shchapova, L., Shibata, T
    • Organizer
      42nd Annual International Conference of the IEEE Engineering in Medicine & Biology Society
    • Related Report
      2020 Annual Research Report
    • Int'l Joint Research
  • [Presentation] Development and applications of 3D markerless motion capture systems for analyzing monkey behavior2020

    • Author(s)
      Matsumoto,J., Nishijo,H., Mimura,K., Inoue,K., Go,Y. and Shibata,T.
    • Organizer
      脳と心のメカニズム 第20回冬のワークショップ
    • Related Report
      2019 Annual Research Report
    • Int'l Joint Research
  • [Presentation] 神経科学における動物用マーカーレスモーションキャプチャーの活用2020

    • Author(s)
      松本 惇平、西条 寿夫、三村 喬生、井上 謙一、郷 康広、柴田 智広
    • Organizer
      PS19 日本解剖学会連携シンポジウム「データ駆動型知能を用いた神経科学の現状と展望」
    • Related Report
      2019 Annual Research Report
  • [Presentation] ラット海馬スライスへのカルバコール投与により誘導 される脳波様振動の概日調節機構2020

    • Author(s)
      重本昌也、夏目季代久
    • Organizer
      2019年度新学術領域研究学術研究支援基盤形 成【先端モデル動物支援プラットフォーム】成果発表会
    • Related Report
      2019 Annual Research Report
  • [Presentation] Development and application of 3D markerless motion capture system for analyzing social and emotional behavior in animals2019

    • Author(s)
      Matsumoto,J.,Mimura,K., Shibata,T., Inoue,K., Go,Y. and Nishijo,H.
    • Organizer
      Toyama Forum for Academic Summit on“Dynamic Brain”
    • Related Report
      2019 Annual Research Report
    • Int'l Joint Research
  • [Presentation] 情報と一体化した高付加価値リソース創出に向けて2019

    • Author(s)
      桝屋啓志
    • Organizer
      第42回日本分子生物学会年会 ナショナルバイオリソースプロジェクト公開シンポジウム-NBRPが支える生命科学研究最前線-
    • Related Report
      2019 Annual Research Report
    • Invited
  • [Presentation] 多視点RGB-D映像を用いたマウスの社会行動動作推定アルゴリズムの開発2019

    • Author(s)
      松本惇平、三村喬生、柴田智広、西丸広史、高村雄策、小野武年、西条寿夫
    • Organizer
      「次世代脳冬のシンポジウム」
    • Related Report
      2019 Annual Research Report
  • [Presentation] Constant dark condition suppresses the diurnal modulation of carbachol-induced oscillations in rat hippocampal slices2019

    • Author(s)
      Shigemoto,M and Natsume,K.
    • Organizer
      Neuro2019
    • Related Report
      2019 Annual Research Report
    • Int'l Joint Research
  • [Presentation] Diurnal rhythm modulates the frequency of carbachol-induced beta oscillations in rat hippocampal slices2019

    • Author(s)
      Shigemoto,M and Natsume,K.
    • Organizer
      SFN2019
    • Related Report
      2019 Annual Research Report
    • Int'l Joint Research
  • [Presentation] 明暗条件と恒常暗条件で観測される、ラット海馬スラ イスにおけるカルバコール誘導脳波様振動の日内調節2019

    • Author(s)
      重本昌也、夏目季代久
    • Organizer
      「次世代脳冬のシンポジ ウム」
    • Related Report
      2019 Annual Research Report
  • [Presentation] Gait Evaluation on Parkinson’s Disease Patients Using Spontaneous Stimulus Induced by UPS-PD2019

    • Author(s)
      Higuchi, A., Shiraishi, J., Kurita, Y., Shchelkanova, E., Ikeda, Y., Shibata, T.
    • Organizer
      2019 IEEE/SICE International Symposium on System Integration
    • Related Report
      2018 Annual Research Report
    • Int'l Joint Research
  • [Presentation] Mouse Anatomical Cardinal Planes and Axes Towards Augmentation for Behavior Analysis2018

    • Author(s)
      Blanco Negrete, S., Joshi, R.P., Labuguen, R., Matsumoto, J., Shibata, T.
    • Organizer
      2018 Joint 7th International Conference on Informatics, Electronics & Vision (ICIEV) and 2018 2nd International Conference on Imaging, Vision & Pattern Recognition (icIVPR)
    • Related Report
      2018 Annual Research Report
    • Int'l Joint Research
  • [Presentation] パーキンソン病患者の歩行に対するUPS-PDの影響2018

    • Author(s)
      樋口藍, 栗田雄一, 白石純一郎, Shchelkanova, E., 池田洋介, 柴田智広
    • Organizer
      第36回日本ロボット学会学術講演会
    • Related Report
      2018 Annual Research Report
  • [Presentation] Analyzing the Behavior of Rats by Learning the Individuality on their Motions2018

    • Author(s)
      Labuguen, R., Dwivedi Kumar, S., Matsumoto, J., Shibata, T.
    • Organizer
      次世代脳プロジェクト冬のシンポジウム2018
    • Related Report
      2018 Annual Research Report
  • [Presentation] Clothing Extremity Identification Using Convolutional Neural Network Regressor2018

    • Author(s)
      Ngo, G., Gaurav, V., and Shibata, T.
    • Organizer
      2018 Joint 7th International Conference on Informatics, Electronics & Vision (ICIEV) and 2018 2nd International Conference on Imaging, Vision & Pattern Recognition (icIVPR)
    • Related Report
      2017 Annual Research Report
    • Int'l Joint Research
  • [Presentation] Monkey Features Location Identification Using Convolutional Neural Networks2018

    • Author(s)
      Labuguen, R., Gaurav, V., Blanco Negrete, S., Matsumoto, J., Inoue, K., Shiata, T.
    • Organizer
      The 28th Annual Conference of the Japanese Neural Network Society
    • Related Report
      2017 Annual Research Report
    • Int'l Joint Research
  • [Presentation] The muscarinic acetylcholine receptor subtype involved in the suppression of the epileptic discharges with the carbachol-induced beta oscillation in rat hippocampal slices2017

    • Author(s)
      Sawada, T., Natume, K.
    • Organizer
      第40回日本神経科学大会
    • Related Report
      2017 Annual Research Report
  • [Presentation] The hippocampal beta rhythm and the computational model of it2017

    • Author(s)
      Kageyama I., Natsume K.
    • Organizer
      NOLTA2017 Special Sessions
    • Related Report
      2017 Annual Research Report
  • [Presentation] Missing value estimation of sEMG signals using BGPLVM toward control of a multi-fingered prosthetic hand2017

    • Author(s)
      Dwivedi Kumar, S., Koganti, N., Shibata T.
    • Organizer
      第27回日本神経回路学会
    • Related Report
      2017 Annual Research Report
  • [Presentation] A Novel Practical Approach to Prosthetic Control of Continuous Multi-Fingered Kinematics with a Low-Cost Wearable sEMG Device2017

    • Author(s)
      Shibata T., Shibata T.
    • Organizer
      39th Annual International Conference of the IEEE Engineering in Medicine and Biology Society
    • Related Report
      2017 Annual Research Report
    • Int'l Joint Research
  • [Presentation] A Study on Automatic OWAS Classification of the Working Postures of a Caregiver2017

    • Author(s)
      Omure, Y., Izumi, H., Shibata, T.
    • Organizer
      39th Annual International Conference of the IEEE Engineering in Medicine and Biology Society
    • Related Report
      2017 Annual Research Report
    • Int'l Joint Research
  • [Presentation] RDF-based integration of phenotype data of experimental animals in Japan2017

    • Author(s)
      Masuya, H.
    • Organizer
      NIX-odML Global Workshop & Hackathon 2017
    • Related Report
      2017 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] 表現型データ統合データベースJ-Phenomeにおける計測メタデータの整理統合2017

    • Author(s)
      桝屋啓志
    • Organizer
      2017年度生命科学系学会合同年次大会(ConBio2017)
    • Related Report
      2017 Annual Research Report
    • Invited
  • [Presentation] 情報通信技術や知能ロボット技術を活用したスマートライフケア社会の創造を目指して2017

    • Author(s)
      柴田智広
    • Organizer
      電子情報通信学学会スマートインフォメディアシステム研究会6月研究会
    • Related Report
      2017 Annual Research Report
    • Invited
  • [Presentation] 足圧中心追跡課題時のNIRSを用いた前頭前皮質活動の機能的解析2017

    • Author(s)
      柴田智広、堀 和貴、楠根 穣
    • Organizer
      ニューロコンピューティング研究会
    • Related Report
      2016 Annual Research Report
  • [Book] 人工知能学大辞典2017

    • Author(s)
      松原仁、他
    • Publisher
      共立出版
    • ISBN
      9784320124202
    • Related Report
      2017 Annual Research Report
  • [Remarks] H28年度採択新学術領域研究「個性」創発脳 業績

    • URL

      http://www.koseisouhatsu.jp/achievement/index.html

    • Related Report
      2020 Annual Research Report
  • [Remarks] 柴田研究室「研究紹介」

    • URL

      https://www.brain.kyutech.ac.jp/~tom/ja/research/

    • Related Report
      2020 Annual Research Report
  • [Remarks] 柴田研究室外部発表情報

    • URL

      http://www.brain.kyutech.ac.jp/~tom/ja/publication/

    • Related Report
      2017 Annual Research Report

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Published: 2016-07-04   Modified: 2023-01-30  

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