Jove
Visualize
Contact Us
JoVE
x logofacebook logolinkedin logoyoutube logo
ABOUT JoVE
OverviewLeadershipBlogJoVE Help Center
AUTHORS
Publishing ProcessEditorial BoardScope & PoliciesPeer ReviewFAQSubmit
LIBRARIANS
TestimonialsSubscriptionsAccessResourcesLibrary Advisory BoardFAQ
RESEARCH
JoVE JournalMethods CollectionsJoVE Encyclopedia of ExperimentsArchive
EDUCATION
JoVE CoreJoVE BusinessJoVE Science EducationJoVE Lab ManualFaculty Resource CenterFaculty Site
Terms & Conditions of Use
Privacy Policy
Policies

Related Concept Videos

You might also read

Related Articles

Articles linked to this work by shared authors, journal, and citation graph.

Sort by
Same author

Essential Role of CD63 in Maintaining Corneal Epithelial Identity in the Human Limbus.

Investigative ophthalmology & visual science·2026
Same author

Station Holding During Rheotaxis: A Sensitive Assay of Lateral Line Function in Larval Zebrafish.

Bio-protocol·2025
Same author

GABA <sub>A</sub> α4 is expressed in cerebrospinal fluid-contacting neurons and regulates swim behavior in developing zebrafish.

microPublication biology·2025
Same author

Brown adipose tissue remains hot.

Nature reviews. Endocrinology·2025
Same author

Perceived Discrimination and Immunological Aging: A Systematic Review of Cellular and Molecular Markers.

Biopsychosocial science and medicine·2025
Same author

Routine production of population trends from citizen science data: insights into the dynamics of common bird and plant species in France.

Comptes rendus biologies·2025
Same journal

OpenIMC: an open-source platform for analyzing single-cell and spatial proteomics by imaging mass cytometry.

BMC bioinformatics·2026
Same journal

NAP: an open source pipeline for cross-domain microbiome profiling using Nanopore sequencing-derived amplicon data.

BMC bioinformatics·2026
Same journal

SurvGME: an R package for survival analysis with graphical and measurement error models.

BMC bioinformatics·2026
Same journal

SimMapNet: a Bayesian framework for gene regulatory network inference using gene ontology similarities as external hint.

BMC bioinformatics·2026
Same journal

Dual channel drug-drug interactions extraction based on cross attention.

BMC bioinformatics·2026
Same journal

FeSseqdb: a curated sequence-level database and interpretable machine learning framework for identifying iron-sulfur proteins.

BMC bioinformatics·2026
See all related articles

Related Experiment Video

Updated: May 30, 2025

Using an Automated 3D-tracking System to Record Individual and Shoals of Adult Zebrafish
14:03

Using an Automated 3D-tracking System to Record Individual and Shoals of Adult Zebrafish

Published on: December 5, 2013

11.0K

Marigold: a machine learning-based web app for zebrafish pose tracking.

Gregory Teicher1,2, R Madison Riffe3,4, Wayne Barnaby3,4

  • 1Biology Department, University of Massachusetts Amherst, Amherst, MA, USA. gteicher@umass.edu.

BMC Bioinformatics
|January 28, 2025
PubMed
Summary
This summary is machine-generated.

Marigold is a free, open-source web app for analyzing zebrafish behavior, offering robust tracking and visualization for drug discovery and neurological disorder research. It simplifies high-throughput behavioral analysis, even in low-resource settings.

Keywords:
BehaviorMachine learningOpen sourcePose trackingSoftwareWeb appZebrafish

More Related Videos

Anesthesia-free Heartbeat Measurements in Freely Moving Zebrafish
03:57

Anesthesia-free Heartbeat Measurements in Freely Moving Zebrafish

Published on: April 18, 2025

257
VisioTracker, an Innovative Automated Approach to Oculomotor Analysis
05:51

VisioTracker, an Innovative Automated Approach to Oculomotor Analysis

Published on: October 12, 2011

11.0K

Related Experiment Videos

Last Updated: May 30, 2025

Using an Automated 3D-tracking System to Record Individual and Shoals of Adult Zebrafish
14:03

Using an Automated 3D-tracking System to Record Individual and Shoals of Adult Zebrafish

Published on: December 5, 2013

11.0K
Anesthesia-free Heartbeat Measurements in Freely Moving Zebrafish
03:57

Anesthesia-free Heartbeat Measurements in Freely Moving Zebrafish

Published on: April 18, 2025

257
VisioTracker, an Innovative Automated Approach to Oculomotor Analysis
05:51

VisioTracker, an Innovative Automated Approach to Oculomotor Analysis

Published on: October 12, 2011

11.0K

Area of Science:

  • Neuroscience
  • Behavioral Science
  • Bioinformatics

Background:

  • High-throughput behavioral analysis is crucial for drug discovery and modeling neurological disorders.
  • Zebrafish embryos and larvae are ideal models due to their rapid development and genetic relevance.
  • Existing software often struggles with dynamic backgrounds, multiwell formats, and requires significant expertise.

Purpose of the Study:

  • Introduce Marigold, a free and open-source web application for high-throughput behavioral analysis of zebrafish.
  • Address limitations of current software, including dynamic backgrounds, multiwell support, hardware costs, and programming expertise.

Main Methods:

  • Developed Marigold as a web app with an intuitive graphical user interface.
  • Utilized a custom-designed neural network for efficient pose tracking of up to 10 keypoints.
  • Supported single- and multiwell formats, exporting kinematic parameters and data visualizations.

Main Results:

  • Marigold demonstrates reasonable training and inference speeds on standard computers.
  • Successfully analyzed touch-evoked escape responses in techno trousers (tnt) mutant embryos.
  • Identified differences in swimming behavior between fed and unfed zebrafish larvae at different developmental stages.

Conclusions:

  • Marigold facilitates novel behavioral findings in zebrafish, demonstrating its utility in biological experiments.
  • Its ease of use, robust tracking, and flexibility make it valuable for diverse research, especially in low-resource settings.
  • Marigold is accessible as a web app, requiring no installation and running on multiple operating systems.