Skip to main content
bioRxiv
  • Home
  • About
  • Submit
  • ALERTS / RSS
Advanced Search
New Results

Chronotate: An open-source tool for manual timestamping and quantification of animal behavior

View ORCID ProfilePaul A. Philipsberg, View ORCID ProfileZoé Christenson Wick, Keziah S. Diego, Nick Vaughan, Angelina Galas, Albert Jurkowski, View ORCID ProfileYu Feng, View ORCID ProfileLauren M. Vetere, View ORCID ProfileLingxuan Chen, View ORCID ProfileDenise J. Cai, View ORCID ProfileTristan Shuman
doi: https://doi.org/10.1101/2023.05.31.543063
Paul A. Philipsberg
aIcahn School of Medicine at Mount Sinai, New York NY
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
  • ORCID record for Paul A. Philipsberg
  • For correspondence: paul.philipsberg@icahn.mssm.edu tristan.shuman@mssm.edu
Zoé Christenson Wick
aIcahn School of Medicine at Mount Sinai, New York NY
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
  • ORCID record for Zoé Christenson Wick
Keziah S. Diego
aIcahn School of Medicine at Mount Sinai, New York NY
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
Nick Vaughan
aIcahn School of Medicine at Mount Sinai, New York NY
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
Angelina Galas
aIcahn School of Medicine at Mount Sinai, New York NY
bNew York University, New York NY
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
Albert Jurkowski
aIcahn School of Medicine at Mount Sinai, New York NY
cCUNY Hunter College, New York NY
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
Yu Feng
aIcahn School of Medicine at Mount Sinai, New York NY
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
  • ORCID record for Yu Feng
Lauren M. Vetere
aIcahn School of Medicine at Mount Sinai, New York NY
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
  • ORCID record for Lauren M. Vetere
Lingxuan Chen
aIcahn School of Medicine at Mount Sinai, New York NY
dUniversity of California Irvine, Irvine CA
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
  • ORCID record for Lingxuan Chen
Denise J. Cai
aIcahn School of Medicine at Mount Sinai, New York NY
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
  • ORCID record for Denise J. Cai
Tristan Shuman
aIcahn School of Medicine at Mount Sinai, New York NY
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
  • ORCID record for Tristan Shuman
  • For correspondence: paul.philipsberg@icahn.mssm.edu tristan.shuman@mssm.edu
  • Abstract
  • Full Text
  • Info/History
  • Metrics
  • Preview PDF
Loading

ABSTRACT

A core necessity to behavioral neuroscience research is the ability to accurately measure performance on behavioral assays, such as the novel object location and novel object recognition tasks. These tasks are widely used in neuroscience research and measure a rodent’s instinct for investigating novel features as a proxy to test their memory of a previous experience. Automated tools for scoring behavioral videos can be cost prohibitive and often have difficulty distinguishing between active investigation of an object and simply being in close proximity to an object. As such, many experimenters continue to rely on hand scoring interactions using stopwatches which makes it difficult to review scoring after-the-fact and results in the loss of temporal information. Here, we introduce Chronotate, a free, open-source tool to aid in manually scoring novel object behavior videos. The software consists of an interactive video player with keyboard integration for marking timestamps of behavioral events during video playback, making it simple to quickly score and review bouts of rodent-object interaction. In addition, Chronotate outputs detailed interaction bout data, allowing for nuanced behavioral performance analyses. Using this detailed temporal information, we demonstrate that novel object location performance peaks within the first 3 seconds of interaction time and preference for the novel location becomes reduced across the test session. Thus, Chronotate can be used to determine the temporal structure of interactions on this task and can provide new insight into the memory processes that drive this behavior. Chronotate is available for download at: https://github.com/ShumanLab/Chronotate.

Competing Interest Statement

The authors have declared no competing interest.

Copyright 
The copyright holder for this preprint is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under a CC-BY-NC-ND 4.0 International license.
Back to top
PreviousNext
Posted June 04, 2023.
Download PDF
Email

Thank you for your interest in spreading the word about bioRxiv.

NOTE: Your email address is requested solely to identify you as the sender of this article.

Enter multiple addresses on separate lines or separate them with commas.
Chronotate: An open-source tool for manual timestamping and quantification of animal behavior
(Your Name) has forwarded a page to you from bioRxiv
(Your Name) thought you would like to see this page from the bioRxiv website.
CAPTCHA
This question is for testing whether or not you are a human visitor and to prevent automated spam submissions.
Share
Chronotate: An open-source tool for manual timestamping and quantification of animal behavior
Paul A. Philipsberg, Zoé Christenson Wick, Keziah S. Diego, Nick Vaughan, Angelina Galas, Albert Jurkowski, Yu Feng, Lauren M. Vetere, Lingxuan Chen, Denise J. Cai, Tristan Shuman
bioRxiv 2023.05.31.543063; doi: https://doi.org/10.1101/2023.05.31.543063
Reddit logo Twitter logo Facebook logo LinkedIn logo Mendeley logo
Citation Tools
Chronotate: An open-source tool for manual timestamping and quantification of animal behavior
Paul A. Philipsberg, Zoé Christenson Wick, Keziah S. Diego, Nick Vaughan, Angelina Galas, Albert Jurkowski, Yu Feng, Lauren M. Vetere, Lingxuan Chen, Denise J. Cai, Tristan Shuman
bioRxiv 2023.05.31.543063; doi: https://doi.org/10.1101/2023.05.31.543063

Citation Manager Formats

  • BibTeX
  • Bookends
  • EasyBib
  • EndNote (tagged)
  • EndNote 8 (xml)
  • Medlars
  • Mendeley
  • Papers
  • RefWorks Tagged
  • Ref Manager
  • RIS
  • Zotero
  • Tweet Widget
  • Facebook Like
  • Google Plus One

Subject Area

  • Neuroscience
Subject Areas
All Articles
  • Animal Behavior and Cognition (4658)
  • Biochemistry (10310)
  • Bioengineering (7629)
  • Bioinformatics (26220)
  • Biophysics (13463)
  • Cancer Biology (10638)
  • Cell Biology (15357)
  • Clinical Trials (138)
  • Developmental Biology (8461)
  • Ecology (12768)
  • Epidemiology (2067)
  • Evolutionary Biology (16782)
  • Genetics (11368)
  • Genomics (15420)
  • Immunology (10565)
  • Microbiology (25078)
  • Molecular Biology (10170)
  • Neuroscience (54206)
  • Paleontology (398)
  • Pathology (1659)
  • Pharmacology and Toxicology (2878)
  • Physiology (4320)
  • Plant Biology (9206)
  • Scientific Communication and Education (1582)
  • Synthetic Biology (2543)
  • Systems Biology (6759)
  • Zoology (1455)