Andrew C. Oates

This study measures single-cell transcriptional dynamics in zebrafish embryos using MS2-MCP labeling and light sheet microscopy, revealing discrete transcriptional bursts in the segmentation clock.

Shield-4i enables high-throughput, subcellular-resolution imaging of whole-mount structures to study multiscale information flow in multicellular systems.

LiLiTTool enables real-time tracking of multiple regions of interest in growing embryos using deep learning and sensor fusion, improving long-term imaging reliability.

TopoTome is an unsupervised 3D image segmentation algorithm that outperforms existing methods by using topological data analysis to detect and segment structural features in biological images.

The paper maps lipid distribution across vertebrate development using mass spectrometry imaging and reveals spatially organized metabolic circuits.

This paper investigates how different Notch ligands contribute to the synchronization of the segmentation clock in zebrafish through two competing hypotheses about Delta ligand interactions.

The paper uses live imaging in zebrafish to show that Tbx6 expression waves, driven by Hes/Her genes, prefigure somite boundaries by arresting in boundary cells that later express Mesp.

The paper evaluates the effects of 162 FDA-approved drugs on zebrafish embryogenesis and immune response to SARS-CoV-2 spike protein, identifying potential developmental side effects.

The paper introduces a user-friendly image analysis pipeline for tracking single cells in zebrafish embryos, enabling spatiotemporal analysis of cellular dynamics.

The paper shows that cell-autonomous timing, not cell-extrinsic signals, drives the segmentation clock's wave pattern in vertebrates.

The paper investigates pattern recovery in the zebrafish segmentation clock by resynchronizing cells after inhibiting Notch signaling and develops a model to explain the observed intermingling of normal and defective segments.

The paper shows that somite surface tension adjusts AP lengths to ensure left-right symmetry in zebrafish embryos, independent of the segmentation clock.