Supporting data for "An open-source high-speed infrared videography database to study the principles of active sensing in freely navigating rodents"

Dataset type: Imaging, Neuroscience
Data released on October 18, 2018

Azarfar A; Zhang Y; Alishbayli A; Miceli S; Kepser L; der Wielen Dv; de Moosdijk Mv; Homberg J; Schubert D; Proville R; Celikel T (2018): Supporting data for "An open-source high-speed infrared videography database to study the principles of active sensing in freely navigating rodents" GigaScience Database. http://dx.doi.org/10.5524/100512

DOI10.5524/100512

Active sensing is crucial for navigation. It is characterized by self-generated motor action controlling the accessibility and processing of sensory information. In rodents, active sensing is commonly studied in the whisker system. As rats and mice modulate their whisking contextually, they employ frequency and amplitude modulation. Understanding the development, mechanisms and plasticity of adaptive motor control will require precise behavioral measurements of whisker position. Advances in high-speed videography and analytical methods now permit collection and systematic analysis of large datasets. Here we provide 6642 videos as freely moving juvenile (3rd-4th postnatal week) and adult rodents explore a stationary object on the gap-crossing task. The dataset includes sensory exploration with single- or multi-whiskers in wild-type animals, serotonin transporter knock-out rats, rats received pharmacological intervention targeting serotonergic signaling. The dataset includes varying background illumination conditions and signal-to-noise ratios (SNRs), ranging from homogenous/high contrast to non-homogenous/low-contrast. A subset of videos has been whisker and nose tracked, and are provided as reference for image processing algorithms. The recorded behavioral data can be directly used to study (1) development of sensorimotor computation, (2) top-down mechanisms that control sensory navigation and whisker position, (3) cross-species comparison of active sensing. It could also help to address contextual modulation of active sensing during touch induced whisking in head-fixed versus freely behaving animals. And finally, it provides the necessary data for machine learning approaches for automated analysis of sensory and motion parameters across a wide variety of SNRs with accompanying human observer determined ground-truth.

Additional details

Read the peer-reviewed publication(s):

Azarfar, A., Zhang, Y., Alishbayli, A., Miceli, S., Kepser, L., van der Wielen, D., … Celikel, T. (2018). An open-source high-speed infrared videography database to study the principles of active sensing in freely navigating rodents. GigaScience, 7(12). doi:10.1093/gigascience/giy134





Sample IDTaxonomic IDCommon NameGenbank NameScientific NameSample Attributes
Mouse-Adult-Wild_M110090Mousehouse mouseMus musculus Description:Video of rodent using whisker-dependen...
Life stage:Adult
Host subject id:M1
...
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Mouse-Adult-Wild_M1010090Mousehouse mouseMus musculus Description:Video of rodent using whisker-dependen...
Life stage:Adult
Host subject id:M10
...
+
Mouse-Adult-Wild_M210090Mousehouse mouseMus musculus Description:Video of rodent using whisker-dependen...
Life stage:Adult
Host subject id:M2
...
+
Mouse-Adult-Wild_M310090Mousehouse mouseMus musculus Description:Video of rodent using whisker-dependen...
Life stage:Adult
Host subject id:M3
...
+
Mouse-Adult-Wild_M410090Mousehouse mouseMus musculus Description:Video of rodent using whisker-dependen...
Life stage:Adult
Host subject id:M4
...
+
Mouse-Adult-Wild_M510090Mousehouse mouseMus musculus Description:Video of rodent using whisker-dependen...
Life stage:Adult
Host subject id:M5
...
+
Mouse-Adult-Wild_M610090Mousehouse mouseMus musculus Description:Video of rodent using whisker-dependen...
Life stage:Adult
Host subject id:M6
...
+
Mouse-Adult-Wild_M710090Mousehouse mouseMus musculus Description:Video of rodent using whisker-dependen...
Life stage:Adult
Host subject id:M7
...
+
Mouse-Adult-Wild_M810090Mousehouse mouseMus musculus Description:Video of rodent using whisker-dependen...
Life stage:Adult
Host subject id:M8
...
+
Mouse-Adult-Wild_M910090Mousehouse mouseMus musculus Description:Video of rodent using whisker-dependen...
Life stage:Adult
Host subject id:M9
...
+
Displaying 1-10 of 82 Sample(s).




File NameSample IDData TypeFile FormatSizeRelease Date 
MatLabUNKNOWN107.67 MB2018-10-05
MatLabUNKNOWN61.84 MB2018-10-05
MatLabUNKNOWN70.33 MB2018-10-05
VideoUNKNOWN361.85 KB2018-10-05
VideoUNKNOWN400.26 KB2018-10-05
VideoUNKNOWN312.67 KB2018-10-05
MatLabUNKNOWN27.5 MB2018-10-05
MatLabUNKNOWN22.85 MB2018-10-05
MatLabUNKNOWN120.95 MB2018-10-05
MatLabUNKNOWN39.01 MB2018-10-05
Displaying 1-10 of 12238 File(s).
Funding body Awardee Award ID Comments
European Commission T Celikel 660328 Horizon2020
European Regional Development Fund T Celikel 122035 MIND
Netherlands Organisation for Scientific Research T Celikel 824.14.022 NOW-ALW Open Competition
Date Action
October 18, 2018 Dataset publish
November 3, 2018 Manuscript Link added : 10.1093/gigascience/giy134