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Pinpoint: trajectory planning for multi-probe electrophysiology and injections in an interactive web-based 3D environment

View ORCID ProfileDaniel Birman, Kenneth J. Yang, Steven J. West, Bill Karsh, Yoni Browning, the International Brain Laboratory, Joshua H. Siegle, View ORCID ProfileNicholas A. Steinmetz
doi: https://doi.org/10.1101/2023.07.14.548952
Daniel Birman
1Department of Biological Structure, University of Washington, Seattle, WA 98195, USA
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  • For correspondence: [email protected]
Kenneth J. Yang
1Department of Biological Structure, University of Washington, Seattle, WA 98195, USA
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Steven J. West
2Sainsbury Wellcome Centre, London W1T 4JG, United Kingdom
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Bill Karsh
3HHMI Janelia Research Campus, Ashburn, Virginia 20147, USA
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Yoni Browning
4Allen Institute for Neural Dynamics, Seattle, WA 98109, USA
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Joshua H. Siegle
4Allen Institute for Neural Dynamics, Seattle, WA 98109, USA
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Nicholas A. Steinmetz
1Department of Biological Structure, University of Washington, Seattle, WA 98195, USA
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Abstract

Targeting deep brain structures during electrophysiology and injections requires intensive training and expertise. Even with experience, researchers often can’t be certain that a probe is placed precisely in a target location and this complexity scales with the number of simultaneous probes used in an experiment. Here, we present Pinpoint, open-source software that allows for interactive exploration of stereotaxic insertion plans. Once an insertion plan is created, Pinpoint allows users to save these online and share them with collaborators. 3D modeling tools allow users to explore their insertions alongside rig and implant hardware and ensure plans are physically possible. Probes in Pinpoint can be linked to electronic micro-manipulators allowing real-time visualization of current brain region targets alongside neural data. In addition, Pinpoint can control manipulators to automate and parallelize the insertion process. Compared to previously available software, Pinpoint’s easy access through web browsers, extensive features, and real-time experiment integration enable more efficient and reproducible recordings.

Competing Interest Statement

The authors have declared no competing interest.

Footnotes

  • https://virtualbrainlab.org/pinpoint/installation_and_use.html

  • https://github.com/VirtualBrainLab/Pinpoint

Copyright 
The copyright holder for this preprint is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under a CC-BY-NC-ND 4.0 International license.
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Posted July 15, 2023.
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Pinpoint: trajectory planning for multi-probe electrophysiology and injections in an interactive web-based 3D environment
Daniel Birman, Kenneth J. Yang, Steven J. West, Bill Karsh, Yoni Browning, the International Brain Laboratory, Joshua H. Siegle, Nicholas A. Steinmetz
bioRxiv 2023.07.14.548952; doi: https://doi.org/10.1101/2023.07.14.548952
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Pinpoint: trajectory planning for multi-probe electrophysiology and injections in an interactive web-based 3D environment
Daniel Birman, Kenneth J. Yang, Steven J. West, Bill Karsh, Yoni Browning, the International Brain Laboratory, Joshua H. Siegle, Nicholas A. Steinmetz
bioRxiv 2023.07.14.548952; doi: https://doi.org/10.1101/2023.07.14.548952

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