Automated Detection of Abnormalities in Zebrafish Development
Zebrafish embryos are a valuable model for drug discovery due to their optical transparency and genetic similarity to humans. However, current evaluations rely on manual inspection, which is costly and labor-intensive. While machine learning offers automation potential, progress is limited by the lack of comprehensive datasets. To address this, we introduce a large-scale dataset of high-resolution microscopic image sequences capturing zebrafish embryonic development under both control conditions and exposure to compounds (3,4-dichloroaniline). This dataset, with expert annotations at fine-grained temporal levels, supports two benchmarking tasks: (1) fertility classification, assessing zebrafish egg viability (130,368 images), and (2) toxicity assessment, detecting malformations induced by toxic exposure over time (55,296 images). Alongside the dataset, we present the first transformer-based baseline model that integrates spatiotemporal features to predict developmental abnormalities at early stages. Experimental results present the model's effectiveness, achieving 98% accuracy in fertility classification and 92% in toxicity assessment. These findings underscore the potential of automated approaches to enhance zebrafish-based toxicity analysis.
Code (0)
등록된 구현이 없습니다.
Tasks
Drug DiscoverySimilar Papers 제목 키워드 기반
Deep learning-based framework for cardiac function assessment in embryonic zebrafish from heart beating videos
Zebrafish is a powerful and widely-used model system for a host of biological investigations including cardiovascular studies and genetic screening. Zebrafish are readily assessable during developmental stages; however, …
Automated Detection of Abnormalities from an EEG Recording of Epilepsy Patients With a Compact Convolutional Neural Network
Electroencephalography (EEG) is essential for the diagnosis of epilepsy, but it requires expertise and experience to identify abnormalities. It is thus crucial to develop automated models for the detection of abnormaliti…
EEGElectroencephalogram (EEG)A Fluid-Structure Interaction Model of the Zebrafish Aortic Valve
The zebrafish is a valuable model organism for studying cardiac development and diseases due to its many shared aspects of genetics and anatomy with humans and ease of experimental manipulations. Computational fluid-stru…
AnatomyStrains differences in the collective behaviour of zebrafish (Danio rerio) in heterogeneous environment
Recent studies show differences in individual motion and shoaling tendency between strains of the same species. Here, we analyse the collective motion and the response to visual stimuli in two morphologically different s…
An improved, high yield method for isolating nuclei from individual zebrafish embryos for single-nucleus RNA sequencing
Zebrafish are an ideal system to study the effect(s) of chemical, genetic, and environmental perturbations on development due to their high fecundity and fast growth. Recently, single cell sequencing has emerged as a pow…