OptiJ: Open-source optical projection tomography of large organ samples.

Autor: Vallejo Ramirez PP; Laser Analytics Group, Department of Chemical Engineering and Biotechnology, University of Cambridge, Cambridge, UK., Zammit J; Sensor CDT 2015-2016 student cohort, University of Cambridge, Cambridge, UK., Vanderpoorten O; Laser Analytics Group, Department of Chemical Engineering and Biotechnology, University of Cambridge, Cambridge, UK.; Sensor CDT 2015-2016 student cohort, University of Cambridge, Cambridge, UK., Riche F; Sensor CDT 2015-2016 student cohort, University of Cambridge, Cambridge, UK., Blé FX; Clinical Discovery Unit, Early Clinical Development, IMED Biotech Unit, AstraZeneca, Cambridge, UK., Zhou XH; Bioscience, Respiratory, Inflammation and Autoimmunity, IMED Biotech Unit, AstraZeneca, Gothenburg, Sweden., Spiridon B; Sensor CDT 2015-2016 student cohort, University of Cambridge, Cambridge, UK., Valentine C; Sensor CDT 2015-2016 student cohort, University of Cambridge, Cambridge, UK., Spasov SE; Sensor CDT 2015-2016 student cohort, University of Cambridge, Cambridge, UK., Oluwasanya PW; Sensor CDT 2015-2016 student cohort, University of Cambridge, Cambridge, UK., Goodfellow G; Sensor CDT 2015-2016 student cohort, University of Cambridge, Cambridge, UK., Fantham MJ; Laser Analytics Group, Department of Chemical Engineering and Biotechnology, University of Cambridge, Cambridge, UK., Siddiqui O; Sensor CDT 2015-2016 student cohort, University of Cambridge, Cambridge, UK., Alimagham F; Sensor CDT 2015-2016 student cohort, University of Cambridge, Cambridge, UK., Robbins M; Laser Analytics Group, Department of Chemical Engineering and Biotechnology, University of Cambridge, Cambridge, UK.; Sensor CDT 2015-2016 student cohort, University of Cambridge, Cambridge, UK., Stretton A; Sensor CDT 2015-2016 student cohort, University of Cambridge, Cambridge, UK., Simatos D; Sensor CDT 2015-2016 student cohort, University of Cambridge, Cambridge, UK., Hadeler O; Laser Analytics Group, Department of Chemical Engineering and Biotechnology, University of Cambridge, Cambridge, UK., Rees EJ; Laser Analytics Group, Department of Chemical Engineering and Biotechnology, University of Cambridge, Cambridge, UK., Ströhl F; Laser Analytics Group, Department of Chemical Engineering and Biotechnology, University of Cambridge, Cambridge, UK.; Department of Physics and Technology, UiT The Arctic University of Norway, NO-9037, Tromsø, Norway., Laine RF; Laser Analytics Group, Department of Chemical Engineering and Biotechnology, University of Cambridge, Cambridge, UK.; Medical Research Council Laboratory for Molecular Cell Biology (LMCB), University College London, Gower Street, London, WC1E 6BT, UK., Kaminski CF; Laser Analytics Group, Department of Chemical Engineering and Biotechnology, University of Cambridge, Cambridge, UK. cfk23@cam.ac.uk.
Jazyk: angličtina
Zdroj: Scientific reports [Sci Rep] 2019 Oct 30; Vol. 9 (1), pp. 15693. Date of Electronic Publication: 2019 Oct 30.
DOI: 10.1038/s41598-019-52065-0
Abstrakt: The three-dimensional imaging of mesoscopic samples with Optical Projection Tomography (OPT) has become a powerful tool for biomedical phenotyping studies. OPT uses visible light to visualize the 3D morphology of large transparent samples. To enable a wider application of OPT, we present OptiJ, a low-cost, fully open-source OPT system capable of imaging large transparent specimens up to 13 mm tall and 8 mm deep with 50 µm resolution. OptiJ is based on off-the-shelf, easy-to-assemble optical components and an ImageJ plugin library for OPT data reconstruction. The software includes novel correction routines for uneven illumination and sample jitter in addition to CPU/GPU accelerated reconstruction for large datasets. We demonstrate the use of OptiJ to image and reconstruct cleared lung lobes from adult mice. We provide a detailed set of instructions to set up and use the OptiJ framework. Our hardware and software design are modular and easy to implement, allowing for further open microscopy developments for imaging large organ samples.
Databáze: MEDLINE
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