Whole-Brain Neuronal Activity in Zebrafish During Gut and Vascular Stimulation

Volumetric imaging data captures whole-brain neuronal activity at the cellular level in behaving larval zebrafish. The dataset includes raw and processed calcium imaging timeseries from experiments involving optical uncaging of nutrients in the gut and vasculature, alongside visuo-motor stimulation. The 233.4 GB dataset was created by researchers from Janelia Research Campus and other institutions and was last updated in April 2026.

Use Cases

• Analyze brain-wide neural encoding of nutrient delivery based on the cell_timeseries data.
• Study the integration of gut, visual, and motor signals based on the description of multi-sensory responsive neurons.
• Develop computational models of interoceptive processing based on widespread neural activity unfolding on multiple timescales.
• Validate optical imaging and segmentation pipelines based on the provided volumetric HDF5 data structure.

Strengths

• Dataset size is 233.4 GB, indicating a substantial volume of imaging data.
• Includes both raw (cell_timeseries_raw) and processed (cell_timeseries, cell_baseline) data derivatives.
• Data was generated using a published Volumetric Segmentation Pipeline (Voluseg), suggesting a standardized processing method.

Limitations

• Row count (number of cells or timepoints) is unknown, which may limit suitability assessment.
• Column-level documentation is absent; field semantics for HDF5 groups must be inferred after download.
• Data may reflect experimental bias inherent to the specific optical uncaging and larval zebrafish model used.

Provenance

Source

Figshare, authored by Weiyu Chen et al.

Collection Method

All-optical system for whole-brain neuronal imaging during optical uncaging and visuo-motor stimulation in larval zebrafish.

Freshness

Last updated 2026-04-13 22:45:47