Stephan Saalfeld

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.

A FIB-SEM connectome of the male Drosophila right optic lobe sorts ∼53,000 neurons into 727 types, with neurotransmitter predictions and 577 matched split-GAL4 lines.

The paper identifies periodic ER-PM junctions in dendrites that enable long-range Ca2+ signal integration through local spine activation and ryanodine receptor-dependent Ca2+ release.

The paper releases high-resolution 3D imaging and nucleus segmentations of seven tissues from a P7 mouse using FIB-SEM and machine learning.

The paper investigates how neuronal populations encode visual scenes invariant to perspective changes, finding equivariant structures in higher-order visual areas.

The paper introduces a pipeline for aligning serial section electron microscopy images, improving accuracy and scalability for large datasets.

This paper describes OME-Zarr, a cloud-optimized bioimaging file format developed through community collaboration to improve scalability and data access.

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.

This paper introduces an auxiliary learning task using Local Shape Descriptors to improve neuron segmentation in electron microscopy volumes, achieving performance comparable to state-of-the-art methods with greater efficiency.

The paper develops a method to rapidly reconstruct neural circuits with single synapse resolution using tissue expansion and lattice light sheet microscopy, validated in Drosophila.

The paper presents a scalable pipeline for assembling large electron microscopy datasets into 3D volumes, achieving high throughput and modular design for efficient processing.

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.

This paper creates high-resolution brain and ventral nerve cord templates for Drosophila using advanced imaging and registration techniques, showing improved accuracy and efficiency compared to existing templates.

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.

The paper presents an automatic method to identify synaptic partners in a whole-brain Drosophila EM dataset using convolutional neural networks, achieving high accuracy in predicting synaptic connections.

The paper combines expansion and lattice light sheet microscopy to enable high-speed, nanoscale molecular imaging of neural circuits across large volumes.

The paper provides a complete electron microscopy volume of the adult Drosophila melanogaster brain, revealing new insights into synaptic connectivity and neuronal circuitry.

The paper presents whole-brain serial-section electron microscopy data of a larval zebrafish, enabling reconstruction of neuronal processes and analysis of axonal symmetry and connectivity.

The paper introduces methods to improve neuronal circuit reconstruction in Drosophila by leveraging anatomical features and synaptic connectivity patterns to reduce reconstruction errors.