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Sparse MAP inference of cell shapes and spike trains from calcium imaging data

Research Project

Project/Area Number 26870577
Research Category

Grant-in-Aid for Young Scientists (B)

Allocation TypeMulti-year Fund
Research Field Brain biometrics
Intelligent informatics
Research InstitutionKogakuin University

Principal Investigator

Takekawa Takashi  工学院大学, 情報工学部, 准教授 (50415220)

Project Period (FY) 2014-04-01 – 2016-03-31
Project Status Completed (Fiscal Year 2015)
Budget Amount *help
¥3,120,000 (Direct Cost: ¥2,400,000、Indirect Cost: ¥720,000)
Fiscal Year 2015: ¥1,560,000 (Direct Cost: ¥1,200,000、Indirect Cost: ¥360,000)
Fiscal Year 2014: ¥1,560,000 (Direct Cost: ¥1,200,000、Indirect Cost: ¥360,000)
Keywordsカルシウムイメージング / 信号検出 / 信号源検出 / スパイク時系列 / モデル推定 / 大規模最適化問題 / セルソーティング / スパース性 / MAP推定 / 最適化 / 逐次二次計画法 / 内点法 / 共役勾配法
Outline of Final Research Achievements

Calcium imaging has become popular as data acquisition technique from neural circuits and the scale of imaging data is rapidly increasing. In this paper, we present an automatic cell sorting algorithm which detects cell positions and spike timings simultaneously from large scale calcium imaging data. Our algorithm is based on a simple probabilistic model with random variables for spatial and temporal activities of each cell. The model also contains spatial and temporal baseline as random variables and these variables can be effectively inferred by iterative quadratic programming problems with few control parameters for sparseness. Present inference procedure can detect separately spiking activities from from spatially overlapped neurons which activities contains cross-talk components. Faster implementation of the approach have been also developed by tuning of numerical solver routine using the problem specific characteristic.

Report

(3 results)
  • 2015 Annual Research Report   Final Research Report ( PDF )
  • 2014 Research-status Report
  • Research Products

    (5 results)

All 2015 2014

All Journal Article (1 results) (of which Peer Reviewed: 1 results) Presentation (4 results) (of which Int'l Joint Research: 2 results,  Invited: 1 results)

  • [Journal Article] Spike detection from noisy neural data in linear-probe recordings2014

    • Author(s)
      Takashi Takekawa, Keisuke Ota, Masanori Murayama and Tomoki Fukai
    • Journal Title

      European Journal of Neuroscience

      Volume: 39 Issue: 11 Pages: 1943-1950

    • DOI

      10.1111/ejn.12614

    • Related Report
      2014 Research-status Report
    • Peer Reviewed
  • [Presentation] Sparse MAP inference of cell shapes and spike trains from calcium imaging data with non-negative constraints2015

    • Author(s)
      Takashi Takekawa, Masaaki Sato, Noriaki Ohkawa, Kaoru Inokuchi, Yasunori Hayashi, Tomoki Fukai
    • Organizer
      Society for Neuroscience (SfN) 45th Annual Meeting
    • Place of Presentation
      Chicago
    • Year and Date
      2015-10-18
    • Related Report
      2015 Annual Research Report
    • Int'l Joint Research
  • [Presentation] Automatic inference system of spike trains and cell shapes from large-scale calcium imaging data using non-negative sparse model2015

    • Author(s)
      Takashi Takekawa, Masaaki Sato, Noriaki Ohkawa, Kaoru Inokuchi, Yasunori Hayashi, Tomoki Fukai
    • Organizer
      Cell Symposia: Engineering the Brain
    • Place of Presentation
      Chicago
    • Year and Date
      2015-10-16
    • Related Report
      2015 Annual Research Report
    • Int'l Joint Research
  • [Presentation] Automatic detection system of cell shape and spike timing for calcium imaging data using iterative sequential quadratic programing2015

    • Author(s)
      Takashi Takekawa, Masaaki Sato, Noriaki Ohkawa, Kaoru Inokuchi, Yasunori Hayashi, Tomoki Fukai
    • Organizer
      Japan Neuroscience Society 38th Annual Meeting
    • Place of Presentation
      Kobe
    • Year and Date
      2015-07-30
    • Related Report
      2015 Annual Research Report
  • [Presentation] 最新の実験技術による大規模データを活かすソーティング技術2014

    • Author(s)
      竹川高志
    • Organizer
      第53回日本生体医工学会大会
    • Place of Presentation
      仙台
    • Year and Date
      2014-06-26
    • Related Report
      2014 Research-status Report
    • Invited

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Published: 2014-04-04   Modified: 2017-05-10  

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