Herwig Baier

Penumbria: Advanced 3D cell segmentation for biomedical imaging

Penumbria improves 3D cell segmentation in biomedical imaging by addressing challenges like diverse morphologies and optical aberrations, achieving state-of-the-art accuracy across multiple datasets.

Cognitive ethology of nest building in a shell-dwelling cichlid

The paper investigates nest-building behavior in cichlids, finding it involves innate templates and flexible schema with neural correlates in hippocampus-like regions.

Head stabilization behavior and underlying circuit mechanisms in larval zebrafish

This study shows larval zebrafish use a VCR-like behavior for head stabilization through specific body flexions and neural circuits, similar to mammals.

Parallel and convergent pathways for multifeature visual processing in larval zebrafish sensorimotor decision-making

This study identifies three parallel and converging neural pathways in larval zebrafish that integrate multiple visual features to guide sensorimotor decisions.

Voltage imaging reveals circuit computations in the raphe underlying serotonin-mediated motor vigor learning

The paper uses voltage imaging to show how serotonergic neurons in the raphe encode action outcomes and modulate motor vigor during learning in larval zebrafish.

Global and compartmentalized serotonergic control of sensorimotor integration underlying motor adaptation

This study shows that serotonin modulates brain-wide neural dynamics during motor adaptation in zebrafish through both global and compartmentalized effects.

Positional information drives distinct traits in transcriptomically identified neuronal types

The paper identifies neuronal cell types in the zebrafish optic tectum and shows that transcriptionally similar neurons can have distinct functional and morphological traits based on their spatial position.

Ancient origin of the rod bipolar cell pathway in the vertebrate retina

The paper identifies two rod bipolar cell types in zebrafish that are related to mammalian rod bipolar cells, suggesting the primary rod pathway evolved over 400 million years ago.

Evolution of neuronal cell classes and types in the vertebrate retina

The paper integrates single-cell transcriptomic data from 17 vertebrate species to study the evolution of retinal cell types, finding conserved cell classes and subclasses with variation increasing from outer to inner retina.

Retinal input influences pace of neurogenesis but not cell-type configuration of the visual forebrain

The paper investigates how retinal input affects neurogenesis and cell-type configuration in the visual forebrain of zebrafish, finding that neurogenesis slows but cell-type configuration remains intact.

A single-cell resolution gene expression atlas of the larval zebrafish brain

The paper creates a single-cell gene expression atlas of the larval zebrafish brain using HCR, identifies a novel cerebellar cell type, and integrates gene expression with functional activity maps.

Neural assemblies uncovered by generative modeling explain whole-brain activity statistics and reflect structural connectivity

The paper uses a generative model to uncover neural assemblies in zebrafish brains, showing it can replicate activity statistics and reveal functional connectivity.

Visual recognition of social signals by a tecto-thalamic neural circuit

The paper identifies a tecto-thalamic neural circuit that processes visual social signals and drives social attraction in zebrafish.

TMT-Opsins differentially modulate medaka brain function in a context-dependent fashion

This paper investigates how TMT-opsins modulate medaka brain function differently in various contexts, revealing non-additive interactions and behavioral impacts.

Molecular classification of zebrafish retinal ganglion cells links genes to cell types to behavior

The paper classifies zebrafish retinal ganglion cells using single-cell transcriptomics, identifies marker genes, and links molecular profiles to functional behaviors.

Neuronal circuitry for stimulus selection in the visual system

This study identifies context-dependent contributions of retinotectal and isthmotectal circuits to visual saliency map computation in larval zebrafish using behavioral and functional recordings.

Detection of whole-field luminance changes by superficial interneurons in the zebrafish tectum

The paper investigates the functional properties of zebrafish tectal superficial interneurons (SINs) using imaging and electrophysiology, revealing their response to luminance changes and potential roles in visual processing.

A calibrated optogenetic toolbox of stable zebrafish opsin lines

The paper develops and calibrates nine zebrafish opsin lines for reliable in vivo optogenetic control of neural activity.

Deconstructing hunting behavior reveals a tightly coupled stimulus-response loop

The paper analyzes zebrafish hunting behavior using unsupervised methods to identify behavioral modules and their temporal organization in prey capture.

Zebrafish use visual cues and geometric relationships to form a spatial memory

This study shows juvenile zebrafish use visual cues and geometric relationships to form spatial memory in a Y-shaped maze.

Light-sheet imaging and graph analysis of antidepressant action in the larval zebrafish brain network

The paper uses light-sheet imaging and graph analysis to study antidepressant effects on brain network activity in zebrafish, showing genotype-specific responses to drugs.

Biological motion as an innate perceptual mechanism driving social affiliation

The paper identifies biological motion as an innate perceptual cue driving shoaling in zebrafish using a virtual reality assay.