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A Matlab-based toolbox for characterizing behavior of rodents engaged in string-pulling
String-pulling by rodents is a behavior in which animals make rhythmical body, head, and bilateral forearm as well as skilled hand movements to spontaneously reel in a string. Typical analysis includes kinematic assessment of hand movements done by manually annotating frames. Here, we describe a Mat...
Autores principales: | , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
eLife Sciences Publications, Ltd
2020
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7347385/ https://www.ncbi.nlm.nih.gov/pubmed/32589141 http://dx.doi.org/10.7554/eLife.54540 |
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author | Inayat, Samsoon Singh, Surjeet Ghasroddashti, Arashk Qandeel, Egodage, Pramuka Whishaw, Ian Q Mohajerani, Majid H |
author_facet | Inayat, Samsoon Singh, Surjeet Ghasroddashti, Arashk Qandeel, Egodage, Pramuka Whishaw, Ian Q Mohajerani, Majid H |
author_sort | Inayat, Samsoon |
collection | PubMed |
description | String-pulling by rodents is a behavior in which animals make rhythmical body, head, and bilateral forearm as well as skilled hand movements to spontaneously reel in a string. Typical analysis includes kinematic assessment of hand movements done by manually annotating frames. Here, we describe a Matlab-based software that allows whole-body motion characterization using optical flow estimation, descriptive statistics, principal component, and independent component analyses as well as temporal measures of Fano factor, entropy, and Higuchi fractal dimension. Based on image-segmentation and heuristic algorithms for object tracking, the software also allows tracking of body, ears, nose, and forehands for estimation of kinematic parameters such as body length, body angle, head roll, head yaw, head pitch, and path and speed of hand movements. The utility of the task and software is demonstrated by characterizing postural and hand kinematic differences in string-pulling behavior of two strains of mice, C57BL/6 and Swiss Webster. |
format | Online Article Text |
id | pubmed-7347385 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2020 |
publisher | eLife Sciences Publications, Ltd |
record_format | MEDLINE/PubMed |
spelling | pubmed-73473852020-07-13 A Matlab-based toolbox for characterizing behavior of rodents engaged in string-pulling Inayat, Samsoon Singh, Surjeet Ghasroddashti, Arashk Qandeel, Egodage, Pramuka Whishaw, Ian Q Mohajerani, Majid H eLife Neuroscience String-pulling by rodents is a behavior in which animals make rhythmical body, head, and bilateral forearm as well as skilled hand movements to spontaneously reel in a string. Typical analysis includes kinematic assessment of hand movements done by manually annotating frames. Here, we describe a Matlab-based software that allows whole-body motion characterization using optical flow estimation, descriptive statistics, principal component, and independent component analyses as well as temporal measures of Fano factor, entropy, and Higuchi fractal dimension. Based on image-segmentation and heuristic algorithms for object tracking, the software also allows tracking of body, ears, nose, and forehands for estimation of kinematic parameters such as body length, body angle, head roll, head yaw, head pitch, and path and speed of hand movements. The utility of the task and software is demonstrated by characterizing postural and hand kinematic differences in string-pulling behavior of two strains of mice, C57BL/6 and Swiss Webster. eLife Sciences Publications, Ltd 2020-06-26 /pmc/articles/PMC7347385/ /pubmed/32589141 http://dx.doi.org/10.7554/eLife.54540 Text en © 2020, Inayat et al http://creativecommons.org/licenses/by/4.0/ http://creativecommons.org/licenses/by/4.0/This article is distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/) , which permits unrestricted use and redistribution provided that the original author and source are credited. |
spellingShingle | Neuroscience Inayat, Samsoon Singh, Surjeet Ghasroddashti, Arashk Qandeel, Egodage, Pramuka Whishaw, Ian Q Mohajerani, Majid H A Matlab-based toolbox for characterizing behavior of rodents engaged in string-pulling |
title | A Matlab-based toolbox for characterizing behavior of rodents engaged in string-pulling |
title_full | A Matlab-based toolbox for characterizing behavior of rodents engaged in string-pulling |
title_fullStr | A Matlab-based toolbox for characterizing behavior of rodents engaged in string-pulling |
title_full_unstemmed | A Matlab-based toolbox for characterizing behavior of rodents engaged in string-pulling |
title_short | A Matlab-based toolbox for characterizing behavior of rodents engaged in string-pulling |
title_sort | matlab-based toolbox for characterizing behavior of rodents engaged in string-pulling |
topic | Neuroscience |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7347385/ https://www.ncbi.nlm.nih.gov/pubmed/32589141 http://dx.doi.org/10.7554/eLife.54540 |
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