Evidence map›Paper›PMID 41578141›Full record

ArticleCommunications biology2026

High-throughput multi-camera array microscope platform for automated 3D behavioral analysis of swimming zebrafish larvae.

Haitao Chen, Kevin Li, Lucas Kreiss, Paul Reamey, Lain X Pierce, Ralph Zhang, Ricardo Da Luz, Amey Chaware, Kanghyun Kim, Clare B Cook and 9 more

Abstract read
In one paragraph

Article in Communications biology, 2026. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 2 papers.

0numbers the graph read from it
0cells of the map it votes in
2citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

2 citing papers in PubMed.

  1. Article
  2. Article
4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

19 authors.

Haitao Chen *Department of Biomedical Engineering, Duke University, Durham, NC, USA.ORCID http://orcid.org/0000-0001-6730-0989
Kevin Li *Department of Biomedical Engineering, Duke University, Durham, NC, USA.
Lucas KreissDepartment of Biomedical Engineering, Duke University, Durham, NC, USA.ORCID http://orcid.org/0000-0002-7749-0015
Paul ReameyRamona Optics Inc., Durham, NC, USA.
Lain X PierceDepartment of Pharmaceutical Chemistry, University of California, San Francisco, CA, USA.ORCID http://orcid.org/0000-0002-4656-6275
Ralph ZhangDepartment of Pharmaceutical Chemistry, University of California, San Francisco, CA, USA.ORCID http://orcid.org/0000-0001-5855-1428
Ricardo Da LuzDepartment of Pharmaceutical Chemistry, University of California, San Francisco, CA, USA.
Amey ChawareDepartment of Biomedical Engineering, Duke University, Durham, NC, USA.ORCID http://orcid.org/0000-0003-1548-0740
Kanghyun KimDepartment of Biomedical Engineering, Duke University, Durham, NC, USA.ORCID http://orcid.org/0000-0002-4557-9525
Clare B CookDepartment of Biomedical Engineering, Duke University, Durham, NC, USA.ORCID http://orcid.org/0000-0001-8832-5149
Xi YangDepartment of Biomedical Engineering, Duke University, Durham, NC, USA.
Joshua F LernerDepartment of Biomedical Engineering, Duke University, Durham, NC, USA.ORCID http://orcid.org/0009-0003-5656-6417
Jed DomanRamona Optics Inc., Durham, NC, USA.ORCID http://orcid.org/0009-0009-4114-4362
Aurélien BègueRamona Optics Inc., Durham, NC, USA.ORCID http://orcid.org/0000-0002-6863-2210
John EfromsonRamona Optics Inc., Durham, NC, USA.ORCID http://orcid.org/0000-0002-5431-8634
Mark HarfoucheRamona Optics Inc., Durham, NC, USA.
Gregor HorstmeyerRamona Optics Inc., Durham, NC, USA.
Matthew N McCarrollDepartment of Pharmaceutical Chemistry, University of California, San Francisco, CA, USA. matthew.mccarroll@ucsf.edu.ORCID http://orcid.org/0000-0001-7080-3210
Roarke HorstmeyerDepartment of Biomedical Engineering, Duke University, Durham, NC, USA. roarke.w.horstmeyer@duke.edu.ORCID http://orcid.org/0000-0002-2480-9141

Funding

Parallelized Imaging and Automated Analysis of Zebrafish Assays with a Gigapixel MicroscopeR44OD024879 · OD · RAMONA OPTICS, INC. · PI HARFOUCHE, MARK · 2018 to 2022
$3.5M
High-content behavioral phenotyping of model organisms in three dimensions with a gigapixel microscopeR44OD036187 · OD · RAMONA OPTICS, INC. · PI HARFOUCHE, MARK · 2024 to 2025
$2.0M
New Technologies for Accelerating the Discovery and Characterization of Neuroactives that Address Substance Use DisordersDP1DA058350 · NIDA · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI Matthew N McCarroll · 2023 to 2026
$1.9M
Integrating developmental neurotoxicity screening using automated neuro-behavioral, morphological and neuro-developmental tests in the larval zebrafishR43ES036389 · NIEHS · RAMONA OPTICS, INC. · PI HARFOUCHE, MARK · 2024 to 2024
$295k
National Science Foundation (NSF) 2036439NIDA NIH HHS DP1 DA058350NIEHS NIH HHS R43 ES036389NIH HHS R44 OD024879NIH HHS R44 OD036187U.S. Department of Health & Human Services | National Institutes of Health (NIH) R44OD024879,R44OD036187U.S. Department of Health & Human Services | National Institutes of Health (NIH) R44OD036187U.S. Department of Health & Human Services | NIH | National Institute of Environmental Health Sciences (NIEHS) R44OD024879,1R43ES036389U.S. Department of Health & Human Services | NIH | National Institute on Drug Abuse (NIDA) DP1DA058350
6 · The paper itself

Abstract

Understanding the behavioral and morphological dynamics of moving model organisms like the zebrafish larvae requires accurate, high-throughput 3D analysis. However, traditional single-view 2D video tracking fails to capture the full scope of natural 3D movements and postural dynamics. Here, we present a novel high-throughput 24-camera array microscope with a co-designed "mirrored well plate" that allows for snapshot imaging of up to 48 wells over a 118 mm × 82 mm field of view from two orthogonal directions (i.e., a top-view and side-view). Accurate 3D position estimation and tracking is achieved with an efficient machine learning algorithm that scales well to high-throughput measurements. The proposed approach automates parallelized 3D model organism behavioral analysis, providing 3D skeletal tracking, swim bladder morphological dynamics, and kinematics of up to 48 swimming zebrafish larvae at up to several hundred frames per second. The result is an efficient and scalable solution for high-throughput 3D behavioral studies with broad compatibility with standard workflows across laboratories and procedures working with pharmacology, toxicology, and neuroscience.

Indexed as

Behavior, AnimalHigh-Throughput Screening AssaysImaging, Three-DimensionalMicroscopySwimmingZebrafishAlgorithmsAnimalsBiomechanical PhenomenaLarvaMotion CaptureVideo Recording

Identifiers

PMID41578141
PMCPMC12858796

What OpenQuestion holds

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LicenceCC BY
Read underepoch 390

Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.