Optimising light-tissue interaction to enable multiscale imaging of neuronal dynamics deep within the neocortex
Lead Research Organisation:
University of Oxford
Department Name: Engineering Science
Abstract
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People |
ORCID iD |
| Martin Booth (Principal Investigator) | |
| Adam Packer (Co-Investigator) |
Publications
Hu Q
(2023)
Universal adaptive optics for microscopy through embedded neural network control.
in Light, science & applications
| Description | There have been significant developments in different areas: - We have developed a machine learning based Adaptive Optics method for multiphoton imaging, which allows a faster and more effective way of wavefront correction in microscopes that are commonly used for neuroimaging, leading to more effective imaging of neuronal activity deep within brain tissue. - We have developed a Fisher information guided adaptive optics methods design for optimising wavefront correction processes without a wavefront sensor. This provides new routes to designing efficient adaptive optics microscopes, which are applicable to neuroscience and other areas of imaging. - We have developed an adaptive optics scheme for Gaussian illumination deep microscopic imaging that is optimised for subcortical neuroscience studies. - We have achieved a practical demonstration of an adaptive optics three-photon microscope system for deep imaging of neural activity (1.2-1.3 mm) in live mice. - We have made significant progress in developing an adaptive optics random access laser scanning two-photon microscope for fast imaging in live mice. - We have designed a fast, flexible, low cost, and easy-to-use deformable mirror calibration tool (deflectometry) which can be widely applicable in research and industry. |
| Exploitation Route | We have commercial partners integrating machine-learning based Adaptive Optics methods in commercially available microscope systems. We have also established an academic collaboration with Department of Physiology, Anatomy and Genetics, Oxford, in which the techniques developed by this project will continuously be used by neuroscientists, with plans for this to be extended to users outside of the host department. The software we have developed for machine learning based adaptive optics and deflectometry calibration of adaptive devices will be made open source and accessible to the public. |
| Sectors | Manufacturing including Industrial Biotechology Pharmaceuticals and Medical Biotechnology Other |
| Description | Machine-learning Adaptive Optics has attracted attention from industry, where we stablished commercial collaborations with a few industrial partners to explore commercial interests and potential social impacts. A patent has been granted for the method. |
| First Year Of Impact | 2022 |
| Sector | Manufacturing, including Industrial Biotechology,Pharmaceuticals and Medical Biotechnology |
| Impact Types | Economic |
| Description | The Eric and Wendy Schmidt AI in Science Postdoctoral Fellowship |
| Amount | £93,483 (GBP) |
| Organisation | Schmidt Futures |
| Sector | Charity/Non Profit |
| Country | United States |
| Start | 03/2023 |
| End | 09/2024 |
| Title | Deflectometry calibration of adaptive optical elements |
| Description | Deflectometry was optimised for use in measurement and calibration of adaptive deformable mirrors. This method provides a simple and compact method for online monitoring of such devices. This is essential for practical deployment of adaptive optics, particularly low cost devices, for widespread use in microscopes and other applications. |
| Type Of Material | Technology assay or reagent |
| Year Produced | 2024 |
| Provided To Others? | No |
| Impact | Not yet realised. |
| Title | MLAO |
| Description | This method uses embedded neural network control to implement image-based adaptive optics for aberration correction in microscopes. It provides performance that exceeds previous conventional methods, including estimation of aberrations over a larger range and operation at low signal levels. |
| Type Of Material | Technology assay or reagent |
| Year Produced | 2023 |
| Provided To Others? | Yes |
| Impact | The methods has been used to implement adaptive optics aberration correction in a range of microscopes, including multi photon imaging for neuroscience. |
| URL | https://doi.org/10.1038/s41377-023-01297-x |
| Description | DPAG |
| Organisation | University of Oxford |
| Department | Department of Physiology, Anatomy and Genetics |
| Country | United Kingdom |
| Sector | Academic/University |
| PI Contribution | New adaptive microscope technology for deep tissue imaging. |
| Collaborator Contribution | Expertise in neuroscience and in vivo imaging. |
| Impact | Outputs are in preparation. |
| Start Year | 2023 |
| Title | DETERMINING OPTICAL ABERRATION |
| Description | A method of determining aberration in an optical system comprising an adaptive optical element is provided. The method comprises obtaining a first image in which the adaptive optical element is in a first configuration. The method comprises obtaining a second image in which the adaptive optical element is in a second configuration, wherein the second configuration is different from the first configuration. The method comprises applying a transform to the first image and the second image to produce a transformed first image and a transformed second image. The method comprises obtaining a ratio comprising the transformed first image and the transformed second image and determining a pseudo-PSF from the ratio. The method comprises providing data sampled from the pseudo-PSF to a machine learning algorithm that has been trained to determine an output indicative of aberration coefficients from the data. |
| IP Reference | WO2023144519 |
| Protection | Patent / Patent application |
| Year Protection Granted | 2023 |
| Licensed | No |
| Description | PoL Early Career Researcher Forum |
| Form Of Engagement Activity | Participation in an activity, workshop or similar |
| Part Of Official Scheme? | No |
| Geographic Reach | National |
| Primary Audience | Other audiences |
| Results and Impact | The workshop included about 40 early career researchers who were engaged in the UKRI Physics of Life consortium. The presentation content covered guidance about successful interdisciplinary work and careers development both in academic research and industry. Feedback showed that the workshop influenced the attendees' opinions about future directions of their own work. |
| Year(s) Of Engagement Activity | 2024 |