Measuring Behavior in the Home Cage: Study Design, Applications, Challenges, and Perspectives

Fabrizio Grieco, Briana J. Bernstein, Barbara Biemans, Lior Bikovski, C. Joseph Burnett, Jesse D. Cushman, Elsbeth A. van Dam, Sydney A. Fry, Bar Richmond-Hacham, Judith R. Homberg, Martien J. H. Kas, Helmut W. Kessels, Bastijn Koopmans, Michael J. Krashes, Vaishnav Krishnan, Sreemathi Logan, Maarten Loos, Katharine E. McCann, Qendresa Parduzi, Chaim G. PickThomas D. Prevot, Gernot Riedel, Lianne Robinson, Mina Sadighi, August B. Smit, William Sonntag, Reinko F. Roelofs, Ruud A. J. Tegelenbosch, Lucas P. J. J. Noldus*

*Corresponding author for this work

Research output: Contribution to journalArticlepeer-review

34 Citations (Scopus)
11 Downloads (Pure)


The reproducibility crisis (or replication crisis) in biomedical research is a particularly existential and under-addressed issue in the field of behavioral neuroscience, where, in spite of efforts to standardize testing and assay protocols, several known and unknown sources of confounding environmental factors add to variance. Human interference is a major contributor to variability both within and across laboratories, as well as novelty-induced anxiety. Attempts to reduce human interference and to measure more "natural" behaviors in subjects has led to the development of automated home-cage monitoring systems. These systems enable prolonged and longitudinal recordings, and provide large continuous measures of spontaneous behavior that can be analyzed across multiple time scales. In this review, a diverse team of neuroscientists and product developers share their experiences using such an automated monitoring system that combines Noldus PhenoTyper home-cages and the video-based tracking software, EthoVision XT, to extract digital biomarkers of motor, emotional, social and cognitive behavior. After presenting our working definition of a "home-cage", we compare home-cage testing with more conventional out-of-cage tests (e.g., the open field) and outline the various advantages of the former, including opportunities for within-subject analyses and assessments of circadian and ultradian activity. Next, we address technical issues pertaining to the acquisition of behavioral data, such as the fine-tuning of the tracking software and the potential for integration with biotelemetry and optogenetics. Finally, we provide guidance on which behavioral measures to emphasize, how to filter, segment, and analyze behavior, and how to use analysis scripts. We summarize how the PhenoTyper has applications to study neuropharmacology as well as animal models of neurodegenerative and neuropsychiatric illness. Looking forward, we examine current challenges and the impact of new developments. Examples include the automated recognition of specific behaviors, unambiguous tracking of individuals in a social context, the development of more animal-centered measures of behavior and ways of dealing with large datasets. Together, we advocate that by embracing standardized home-cage monitoring platforms like the PhenoTyper, we are poised to directly assess issues pertaining to reproducibility, and more importantly, measure features of rodent behavior under more ethologically relevant scenarios.

Original languageEnglish
Article number735387
Number of pages26
JournalFrontiers in behavioral neuroscience
Publication statusPublished - 24 Sept 2021

Bibliographical note

This research was supported by NIH grants R00AG056662,
P20GM125528, AG057424 to WS and SL


  • rodent behavior
  • neuroscience
  • home-cage
  • PhenoTyper
  • EthoVision XT
  • video-tracking


Dive into the research topics of 'Measuring Behavior in the Home Cage: Study Design, Applications, Challenges, and Perspectives'. Together they form a unique fingerprint.

Cite this