MARTIN G. WEIGERT

Automated Optimization of Bacterial Tracking Pipelines with TrackMate 8

The paper introduces an automated framework for optimizing bacterial tracking pipelines using TrackMate 8, demonstrating its effectiveness on two use cases.

Smart hybrid microscopy for cell-friendlydetection of rare events

This paper introduces hybrid-EDA, a microscopy framework that reduces phototoxicity while capturing rare biological events using event-driven fluorescence acquisitions.

Specialized signaling centers direct cell fate and spatial organization in a limb organoid model

The paper develops a limb organoid model to study how signaling centers direct cell fate and spatial organization during limb development.

Spotiflow: accurate and efficient spot detection for fluorescence microscopy with deep stereographic flow regression

Spotiflow improves spot detection in microscopy images using deep learning, achieving subpixel accuracy and efficiency across diverse datasets.

Morpho-molecular features of Epithelial Mesenchymal Transition associate with clinical outcome in patients with rectal cancer

The paper links morpho-molecular features of epithelial-mesenchymal transition (EMT) in rectal cancer biopsies to clinical outcomes, showing their association with survival after chemoradiotherapy.

BioImage Model Zoo: A Community-Driven Resource for Accessible Deep Learning in BioImage Analysis

The BioImage Model Zoo provides a community standard, infrastructure, and open repository for sharing, testing, and deploying pre-trained deep learning microscopy models across multiple bioimage analysis tools.

Deep Learning Enables Individual Xenograft Cell Classification in Histological Images by Analysis of Contextual Features

The paper introduces a deep learning tool to classify xenograft cells in histological images by analyzing contextual features, achieving up to 96% accuracy in distinguishing human and murine cells.

Expansion-Assisted Iterative-FISH defines lateral hypothalamus spatio-molecular organization

The paper introduces EASI-FISH, a method for spatial gene expression profiling in thick brain sections, and applies it to discover novel subregions in the lateral hypothalamus.

Bidirectional neuronal migration coordinates retinal morphogenesis bypreventing spatial competition

The paper shows bidirectional neuronal migration prevents spatial competition during retinal morphogenesis in zebrafish, human tissue, and organoids.

YeaZ: A convolutional neural network for highly accurate, label-free segmentation of yeast microscopy images

The paper introduces YeaZ, a CNN for accurate yeast cell segmentation without fluorescent markers, outperforming existing methods and revealing new biology in cell morphology.

CLIJ: GPU-accelerated image processing for everyone

CLIJ provides GPU-accelerated image processing through a Fiji plugin, enabling faster workflows on consumer hardware.

Content-Aware Image Restoration: Pushing the Limits of Fluorescence Microscopy

This paper demonstrates how deep learning-based image restoration extends fluorescence microscopy's capabilities by improving resolution, reducing photon exposure, and increasing frame rates.