Open source code for behavior analysis in rodents

Satoko Takai, Yoshihiro Okumura, Keizo Takao, Yoko Yamaguchi, Tsuyoshi Miyakawa

Research output: Contribution to journalArticle

Abstract

Aim: We have conducted a series of behavioral tests, which cover a broad range of behavioral domains, on various strains of genetically engineered mice. For the behavioral screening, we have been using Image J plugins that we developed for most of the tests in the battery. Our behavioral analysis system with the plugins enables systematic and automated image analysis of behavior. The plugins are freely available on the “Mouse Phenotype Database” website (http://www.mouse-phenotype.org/software.html). Here, we release the source code of the plugins in a Git repository with the aim of promoting their use and expanding their functionality. Methods: We published the source code of the Image J plugins for behavioral analysis at Git repository (https://github.com/neuroinformatics). The source code for light/dark transition, elevated plus maze, open filed, T-maze, and fear conditioning tests was made publicly available in the repository. Conclusions: The source code of the plugins for the behavioral tests as well as the pre-compiled binaries can be freely obtained. The open source code could promote the development and modification of the plugins for additional behavioral indices in these tests and for other behavioral tests.

Original languageEnglish
Pages (from-to)67-69
Number of pages3
JournalNeuropsychopharmacology reports
Volume39
Issue number1
DOIs
Publication statusPublished - 01-03-2019

Fingerprint

Rodentia
Phenotype
Fear
Software
Databases
Light
Behavior Rating Scale
Conditioning (Psychology)

All Science Journal Classification (ASJC) codes

  • Clinical Psychology
  • Pharmacology
  • Psychiatry and Mental health
  • Pharmacology (medical)

Cite this

Takai, Satoko ; Okumura, Yoshihiro ; Takao, Keizo ; Yamaguchi, Yoko ; Miyakawa, Tsuyoshi. / Open source code for behavior analysis in rodents. In: Neuropsychopharmacology reports. 2019 ; Vol. 39, No. 1. pp. 67-69.
@article{505a9babbe8e46cdbcbea7f629131492,
title = "Open source code for behavior analysis in rodents",
abstract = "Aim: We have conducted a series of behavioral tests, which cover a broad range of behavioral domains, on various strains of genetically engineered mice. For the behavioral screening, we have been using Image J plugins that we developed for most of the tests in the battery. Our behavioral analysis system with the plugins enables systematic and automated image analysis of behavior. The plugins are freely available on the “Mouse Phenotype Database” website (http://www.mouse-phenotype.org/software.html). Here, we release the source code of the plugins in a Git repository with the aim of promoting their use and expanding their functionality. Methods: We published the source code of the Image J plugins for behavioral analysis at Git repository (https://github.com/neuroinformatics). The source code for light/dark transition, elevated plus maze, open filed, T-maze, and fear conditioning tests was made publicly available in the repository. Conclusions: The source code of the plugins for the behavioral tests as well as the pre-compiled binaries can be freely obtained. The open source code could promote the development and modification of the plugins for additional behavioral indices in these tests and for other behavioral tests.",
author = "Satoko Takai and Yoshihiro Okumura and Keizo Takao and Yoko Yamaguchi and Tsuyoshi Miyakawa",
year = "2019",
month = "3",
day = "1",
doi = "10.1002/npr2.12047",
language = "English",
volume = "39",
pages = "67--69",
journal = "Neuropsychopharmacology Reports",
issn = "1340-2544",
publisher = "John Wiley and Sons Inc.",
number = "1",

}

Open source code for behavior analysis in rodents. / Takai, Satoko; Okumura, Yoshihiro; Takao, Keizo; Yamaguchi, Yoko; Miyakawa, Tsuyoshi.

In: Neuropsychopharmacology reports, Vol. 39, No. 1, 01.03.2019, p. 67-69.

Research output: Contribution to journalArticle

TY - JOUR

T1 - Open source code for behavior analysis in rodents

AU - Takai, Satoko

AU - Okumura, Yoshihiro

AU - Takao, Keizo

AU - Yamaguchi, Yoko

AU - Miyakawa, Tsuyoshi

PY - 2019/3/1

Y1 - 2019/3/1

N2 - Aim: We have conducted a series of behavioral tests, which cover a broad range of behavioral domains, on various strains of genetically engineered mice. For the behavioral screening, we have been using Image J plugins that we developed for most of the tests in the battery. Our behavioral analysis system with the plugins enables systematic and automated image analysis of behavior. The plugins are freely available on the “Mouse Phenotype Database” website (http://www.mouse-phenotype.org/software.html). Here, we release the source code of the plugins in a Git repository with the aim of promoting their use and expanding their functionality. Methods: We published the source code of the Image J plugins for behavioral analysis at Git repository (https://github.com/neuroinformatics). The source code for light/dark transition, elevated plus maze, open filed, T-maze, and fear conditioning tests was made publicly available in the repository. Conclusions: The source code of the plugins for the behavioral tests as well as the pre-compiled binaries can be freely obtained. The open source code could promote the development and modification of the plugins for additional behavioral indices in these tests and for other behavioral tests.

AB - Aim: We have conducted a series of behavioral tests, which cover a broad range of behavioral domains, on various strains of genetically engineered mice. For the behavioral screening, we have been using Image J plugins that we developed for most of the tests in the battery. Our behavioral analysis system with the plugins enables systematic and automated image analysis of behavior. The plugins are freely available on the “Mouse Phenotype Database” website (http://www.mouse-phenotype.org/software.html). Here, we release the source code of the plugins in a Git repository with the aim of promoting their use and expanding their functionality. Methods: We published the source code of the Image J plugins for behavioral analysis at Git repository (https://github.com/neuroinformatics). The source code for light/dark transition, elevated plus maze, open filed, T-maze, and fear conditioning tests was made publicly available in the repository. Conclusions: The source code of the plugins for the behavioral tests as well as the pre-compiled binaries can be freely obtained. The open source code could promote the development and modification of the plugins for additional behavioral indices in these tests and for other behavioral tests.

UR - http://www.scopus.com/inward/record.url?scp=85062431365&partnerID=8YFLogxK

UR - http://www.scopus.com/inward/citedby.url?scp=85062431365&partnerID=8YFLogxK

U2 - 10.1002/npr2.12047

DO - 10.1002/npr2.12047

M3 - Article

VL - 39

SP - 67

EP - 69

JO - Neuropsychopharmacology Reports

JF - Neuropsychopharmacology Reports

SN - 1340-2544

IS - 1

ER -