BrainSaw systems are actively used in labs and facilities and have contributed to dozens of research papers.

  1. High-throughput serial two-photon tomography with BakingTray and BrainSaw; bioRxiv 2026; SWC
  2. An open-source three-dimensional digital brain atlas of a migratory bird, the Eurasian blackcap; Current Biology 2026; SWC
  3. Replay of procedural memory is independent of the hippocampus; Nature Neuroscience 2026; SWC
  4. Feeding-induced olfactory cortex suppression reduces satiation; Neuron 2025; Charité – Universitätsmedizin Berlin
  5. Direct Hippocampal and Thalamic Inputs to Layer 3 Pyramidal Cells in the Medial Entorhinal Cortex Revealed by Monosynaptic Rabies Tracing; Neuroscience Bulletin 2025; Charité – Universitätsmedizin Berlin
  6. Reproducibility of in-vivo electrophysiological measurements in mice; eLife 2025; SWC
  7. A Brain-Wide Map of Neural Activity during Complex Behaviour; Nature 2025; SWC
  8. Dopaminergic action prediction errors serve as a value-free teaching signal; Nature 2025; SWC
  9. Layer 6 corticocortical neurons are a major route for intra and interhemispheric feedback; eLife 2025; SWC
  10. A subcortical switchboard for perseverative, exploratory and disengaged states; Nature 2025; SWC
  11. Combined transcriptomic, connectivity, and activity profiling of the medial amygdala using highly amplified multiplexed in situ hybridization (hamFISH); eLife (reviewed preprint) 2025; SWC
  12. Motor and vestibular signals in the visual cortex permit the separation of self versus externally generated visual motion; Cell 2025; SWC
  13. Overwriting an instinct: Visual cortex instructs learning to suppress fear responses; Science 2025; SWC
  14. Barcoded Rabies In Situ Connectomics for high-throughput reconstruction of neural circuits; bioRxiv 2025; Francis Crick Institute
  15. A deep-learning strategy to identify cell types across species from high-density extracellular recordings; Cell 2025; UCL
  16. A primary sensory cortical interareal feedforward inhibitory circuit for tacto-visual integration; Nature Communications 2024; SWC
  17. A cortico-collicular circuit for orienting to shelter during escape; Nature 2023; SWC
  18. Functional gene delivery to and across brain vasculature of systemic AAVs with endothelial-specific tropism in rodents and broad tropism in primates; Nature Communications 2023; SWC
  19. Behavioral origin of sound-evoked activity in mouse visual cortex; Nature Neuroscience 2023; UCL
  20. Quantitative analysis of rabies virus-based synaptic connectivity tracing; PLOS ONE 2023; SWC
  21. A fully automated home cage for long-term continuous phenotyping of mouse cognition and behavior; Cell Reports Methods 2023; SWC
  22. Chromatically Corrected Multicolor Multiphoton Microscopy; ACS Photonics 2023; Ecole Polytechnique
  23. Antibody stabilization for thermally accelerated deep immunostaining; Nature Methods 2022; SWC
  24. Representation of ethological events by basolateral amygdala neurons; Cell Reports 2022; SWC
  25. Accurate determination of marker location within whole-brain microscopy images; Scientific Reports 2022; SWC
  26. Learning-related congruent and incongruent changes of excitation and inhibition in distinct cortical areas; PLoS Biology 2022; EPFL
  27. Axonal and Dendritic Morphology of Excitatory Neurons in Layer 2/3 Mouse Barrel Cortex Imaged Through Whole-Brain Two-Photon Tomography and Registered to a Digital Brain Atlas; Frontiers in Neuroanatomy 2022; EPFL
  28. Dendritic Domain-Specific Sampling of Long-Range Axons Shapes Feedforward and Feedback Connectivity of L5 Neurons; Journal of Neuroscience 2022; SWC
  29. A deep learning algorithm for 3D cell detection in whole mouse brain image datasets; PLOS Computational Biology 2021; SWC
  30. The retrosplenial cortex combines internal and external cues to encode head velocity during navigation; Neuron 2021; SWC
  31. Flexible inhibitory control of visually-evoked defensive behavior by the ventral lateral geniculate nucleus; Neuron 2021; SWC
  32. Visual intracortical and transthalamic pathways carry distinct information to cortical areas; Neuron 2021; SWC
  33. Mesoscale cortical dynamics reflect the interaction of sensory evidence and temporal expectation during perceptual decision-making; Neuron 2021; SWC
  34. Rapid suppression and sustained activation of distinct cortical regions for a delayed sensory-triggered motor response; Neuron 2021; EPFL
  35. Anatomically and functionally distinct thalamocortical inputs to primary and secondary mouse whisker somatosensory cortices; Nature Communications 2020; EPFL
  36. Distinct Contributions of Whisker Sensory Cortex and Tongue-Jaw Motor Cortex in a Goal-Directed Sensorimotor Transformation; Neuron 2019; EPFL

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