Rapid image deconvolution and multiview fusion for optical microscopy.

Autor: Guo M; Laboratory of High-Resolution Optical Imaging, National Institute of Biomedical Imaging and Bioengineering, National Institutes of Health, Bethesda, MD, USA., Li Y; State Key Laboratory of Modern Optical Instrumentation, College of Optical Science and Engineering, Zhejiang University, Hangzhou, China., Su Y; Laboratory of High-Resolution Optical Imaging, National Institute of Biomedical Imaging and Bioengineering, National Institutes of Health, Bethesda, MD, USA., Lambert T; Department of Cell Biology, Harvard Medical School, Boston, MA, USA.; Department of Systems Biology, Harvard Medical School, Boston, MA, USA., Nogare DD; Section on Neural Developmental Dynamics, Division of Developmental Biology, Eunice Kennedy Shriver National Institute of Child Health and Human Development, National Institutes of Health, Bethesda, MD, USA., Moyle MW; Departments of Neuroscience and Cell Biology, Yale University School of Medicine, New Haven, CT, USA., Duncan LH; Departments of Neuroscience and Cell Biology, Yale University School of Medicine, New Haven, CT, USA., Ikegami R; Departments of Neuroscience and Cell Biology, Yale University School of Medicine, New Haven, CT, USA., Santella A; Developmental Biology Program, Sloan Kettering Institute, New York, NY, USA., Rey-Suarez I; Laboratory of High-Resolution Optical Imaging, National Institute of Biomedical Imaging and Bioengineering, National Institutes of Health, Bethesda, MD, USA.; Biophysics Program, University of Maryland, College Park, MD, USA., Green D; Women's Malignancies Branch, Center for Cancer Research, National Cancer Institute, Bethesda, MD, USA., Beiriger A; Committee on Development, Regeneration and Stem Cell Biology, University of Chicago, Chicago, IL, USA., Chen J; Advanced Imaging and Microscopy Resource, National Institutes of Health, Bethesda, MD, USA., Vishwasrao H; Advanced Imaging and Microscopy Resource, National Institutes of Health, Bethesda, MD, USA., Ganesan S; Biological Imaging Section, Research Technologies Branch, National Institute of Allergy and Infectious Diseases, National Institutes of Health, Bethesda, MD, USA., Prince V; Committee on Development, Regeneration and Stem Cell Biology, University of Chicago, Chicago, IL, USA.; Department of Organismal Biology and Anatomy, University of Chicago, Chicago, IL, USA., Waters JC; Department of Cell Biology, Harvard Medical School, Boston, MA, USA., Annunziata CM; Women's Malignancies Branch, Center for Cancer Research, National Cancer Institute, Bethesda, MD, USA., Hafner M; Laboratory of Muscle Stem Cells and Gene Regulation, National Institute of Arthritis and Musculoskeletal and Skin Diseases, Bethesda, MD, USA., Mohler WA; Department of Genetics and Genome Sciences and Center for Cell Analysis and Modeling, University of Connecticut Health Center, Farmington, CT, USA., Chitnis AB; Section on Neural Developmental Dynamics, Division of Developmental Biology, Eunice Kennedy Shriver National Institute of Child Health and Human Development, National Institutes of Health, Bethesda, MD, USA., Upadhyaya A; Biophysics Program, University of Maryland, College Park, MD, USA.; Department of Physics, University of Maryland, College Park, MD, USA.; Institute for Physical Science and Technology, University of Maryland, College Park, MD, USA., Usdin TB; Section on Fundamental Neuroscience, National Institute of Mental Health, National Institutes of Health, Bethesda, MD, USA., Bao Z; Developmental Biology Program, Sloan Kettering Institute, New York, NY, USA., Colón-Ramos D; Departments of Neuroscience and Cell Biology, Yale University School of Medicine, New Haven, CT, USA.; Marine Biological Laboratory Fellows Program, Woods Hole, MA, USA.; Instituto de Neurobiología, Recinto de Ciencias Médicas, Universidad de Puerto Rico, San Juan, Puerto Rico., La Riviere P; Marine Biological Laboratory Fellows Program, Woods Hole, MA, USA.; Department of Radiology, University of Chicago, Chicago, IL, USA., Liu H; State Key Laboratory of Modern Optical Instrumentation, College of Optical Science and Engineering, Zhejiang University, Hangzhou, China. liuhf@zju.edu.cn., Wu Y; Laboratory of High-Resolution Optical Imaging, National Institute of Biomedical Imaging and Bioengineering, National Institutes of Health, Bethesda, MD, USA. yicong.wu@nih.gov., Shroff H; Laboratory of High-Resolution Optical Imaging, National Institute of Biomedical Imaging and Bioengineering, National Institutes of Health, Bethesda, MD, USA.; Advanced Imaging and Microscopy Resource, National Institutes of Health, Bethesda, MD, USA.; Marine Biological Laboratory Fellows Program, Woods Hole, MA, USA.
Jazyk: angličtina
Zdroj: Nature biotechnology [Nat Biotechnol] 2020 Nov; Vol. 38 (11), pp. 1337-1346. Date of Electronic Publication: 2020 Jun 29.
DOI: 10.1038/s41587-020-0560-x
Abstrakt: The contrast and resolution of images obtained with optical microscopes can be improved by deconvolution and computational fusion of multiple views of the same sample, but these methods are computationally expensive for large datasets. Here we describe theoretical and practical advances in algorithm and software design that result in image processing times that are tenfold to several thousand fold faster than with previous methods. First, we show that an 'unmatched back projector' accelerates deconvolution relative to the classic Richardson-Lucy algorithm by at least tenfold. Second, three-dimensional image-based registration with a graphics processing unit enhances processing speed 10- to 100-fold over CPU processing. Third, deep learning can provide further acceleration, particularly for deconvolution with spatially varying point spread functions. We illustrate our methods from the subcellular to millimeter spatial scale on diverse samples, including single cells, embryos and cleared tissue. Finally, we show performance enhancement on recently developed microscopes that have improved spatial resolution, including dual-view cleared-tissue light-sheet microscopes and reflective lattice light-sheet microscopes.
Databáze: MEDLINE