AIMC Topic: Zebrafish

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Zebrafish identification with deep CNN and ViT architectures using a rolling training window.

Scientific reports
Zebrafish are widely used in vertebrate studies, yet minimally invasive individual tracking and identification in the lab setting remain challenging due to complex and time-variable conditions. Advancements in machine learning, particularly neural ne...

Intelligent larval zebrafish phenotype recognition via attention mechanism for high-throughput screening.

Computers in biology and medicine
BACKGROUND: Larval zebrafish phenotypes serve as critical research indicators in fields such as ecotoxicology and safety assessment since phenotypic defects are closely related to alterations of underlying pathway. However, identifying these defects ...

Functionally characterizing obesity-susceptibility genes using CRISPR/Cas9, in vivo imaging and deep learning.

Scientific reports
Hundreds of loci have been robustly associated with obesity-related traits, but functional characterization of candidate genes remains a bottleneck. Aiming to systematically characterize candidate genes for a role in accumulation of lipids in adipocy...

Screening of estrogen receptor activity of per- and polyfluoroalkyl substances based on deep learning and in vivo assessment.

Environmental pollution (Barking, Essex : 1987)
Over the past decades, exposure to per- and polyfluoroalkyl substances (PFAS), a group of synthetic chemicals notorious for their environmental persistence, has been shown to pose increased health risks. Despite that some PFAS were reported to have e...

Machine learning enables high-throughput, low-replicate screening for novel anti-seizure targets and compounds using combined movement and calcium fluorescence in larval zebrafish.

European journal of pharmacology
Identifying new anti-seizure medications (ASMs) is difficult due to limitations in animal-based assays. Zebrafish (Danio rerio) serve as a model for chemical and genetic seizures, but current methods for detecting anti-seizure responses are limited b...

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

BMC bioinformatics
BACKGROUND: High-throughput behavioral analysis is important for drug discovery, toxicological studies, and the modeling of neurological disorders such as autism and epilepsy. Zebrafish embryos and larvae are ideal for such applications because they ...

Development and applications of a machine learning model for an in-depth analysis of pentylenetetrazol-induced seizure-like behaviors in adult zebrafish.

Neuroscience
Epilepsy, a neurological disorder causing recurring seizures, is often studied in zebrafish by exposing animals to pentylenetetrazol (PTZ), which induces clonic- and tonic-like behaviors. While adult zebrafish seizure-like behaviors are well characte...

Using machine learning models to predict the dose-effect curve of municipal wastewater for zebrafish embryo toxicity.

Journal of hazardous materials
Municipal wastewater substantially contributes to aquatic ecological risks. Assessing the toxicity of municipal wastewater through dose-effect curves is challenging owing to the time-consuming, labor-intensive, and costly nature of biological assays....

The regulatory landscape of 5' UTRs in translational control during zebrafish embryogenesis.

Developmental cell
The 5' UTRs of mRNAs are critical for translation regulation during development, but their in vivo regulatory features are poorly characterized. Here, we report the regulatory landscape of 5' UTRs during early zebrafish embryogenesis using a massivel...

Anxiety in aquatics: Leveraging machine learning models to predict adult zebrafish behavior.

Neuroscience
Accurate analysis of anxiety behaviors in animal models is pivotal for advancing neuroscience research and drug discovery. This study compares the potential of DeepLabCut, ZebraLab, and machine learning models to analyze anxiety-related behaviors in ...