Dagmar Kainmueller

Neuron types and distribution of a Drosophila driver line collection

The paper annotates 6,368 neurons across 1,772 driver lines in Drosophila using electron microscopy data and manual scoring, estimating the fraction of the central nervous system labeled by the collection.

Tumor-versus-non-tumor T cell enrichment supported by single-cell and spatial phenotyping enables antigen-agnostic prioritization of candidate tumor-reactive TCRs

The paper identifies tumor-reactive TCRs using T/N ratios and validates them with single-cell and spatial data, showing their tumor association and effector phenotype.

Automated classification of cellular expression in multiplexed imaging data with Nimbus

The paper introduces Nimbus, a deep learning model for predicting marker positivity in multiplexed imaging data using a pre-trained dataset, and shows its integration with clustering for cell subtype identification.

Mechanosensitive PIEZO2 channels shape coronary artery development

This study shows PIEZO2 channels are critical for coronary artery development, as their absence causes vessel malformations and cardiac issues in mice.

Do transformers and CNNs learn different concepts of brain age?

This study compares transformers and CNNs in predicting brain age using MRI data, finding they perform similarly and represent different concepts of brain aging.

A Connectome of the Male Drosophila Ventral Nerve Cord

Roughly 23 thousand traced neurons and 10 million TBars of the male Drosophila nerve cord, reconstructed from electron microscopy, typed, and queryable in neuPrint down to motor neurons.

A searchable image resource of Drosophila GAL4-driver expression patterns with single neuron resolution

The paper provides a searchable image resource of Drosophila GAL4-driver expression patterns at single neuron resolution to improve cell type identification and split-GAL4 combination prediction.

Automated Reconstruction of Whole-Embryo Cell Lineages by Learning from Sparse Annotations

This paper introduces a method for automated lineage reconstruction in developing embryos using sparse annotations, achieving 75.8% accuracy on mouse embryos compared to 31.8% previously.

PatchPerPixMatch for Automated 3d Search of Neuronal Morphologies in Light Microscopy

PatchPerPixMatch automates 3D search for neuronal morphologies in Drosophila GAL4 line data by combining segmentation and efficient matching.

A Connectome and Analysis of the Adult Drosophila Central Brain

The paper presents a detailed connectome of the adult Drosophila central brain, including new methods for data analysis and biological insights into neural circuit organization.

A Connectome of the Adult Drosophila Central Brain

A dense electron-microscopy reconstruction of half the fly central brain, with nearly every cell typed and queryable online, turns months of tracing partners into a database lookup.

Cell Dynamics Underlying Oriented Growth Of The Drosophila Imaginal Wing Disc

The paper quantifies how cell divisions and rearrangements drive anisotropic growth in Drosophila wing discs under 20E treatment.