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An LED-Based structured illumination microscope using a digital micromirror device and GPU accelerated image reconstruction

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dc.contributor.authorDOĞAN, BUKET
dc.contributor.authorsAydin M., Uysalli Y., Özgönül E., Morova B., Tiryaki F., Firat-Karalar E. N. , DOĞAN B., Kiraz A.
dc.date.accessioned2022-12-26T06:45:36Z
dc.date.available2022-12-26T06:45:36Z
dc.date.issued2022-09-01
dc.description.abstract© 2022 Aydin et al. This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.When combined with computational approaches, fluorescence imaging becomes one of the most powerful tools in biomedical research. It is possible to achieve resolution figures beyond the diffraction limit, and improve the performance and flexibility of high-resolution imaging systems with techniques such as structured illumination microscopy (SIM) reconstruction. In this study, the hardware and software implementation of an LED-based superresolution imaging system using SIM employing GPU accelerated parallel image reconstruction is presented. The sample is illuminated with two-dimensional sinusoidal patterns with various orientations and lateral phase shifts generated using a digital micromirror device (DMD). SIM reconstruction is carried out in frequency space using parallel CUDA kernel functions. Furthermore, a general purpose toolbox for the parallel image reconstruction algorithm and an infrastructure that allows all users to perform parallel operations on images without developing any CUDA kernel code is presented. The developed image reconstruction algorithm was run separately on a CPU and a GPU. Two different SIM reconstruction algorithms have been developed for the CPU as mono-thread CPU algorithm and multi-thread OpenMP CPU algorithm. SIM reconstruction of 1024 × 1024 px images was achieved in 1.49 s using GPU computation, indicating an enhancement by*28 and*20 in computation time when compared with mono-thread CPU computation and multi-thread OpenMP CPU computation, respectively.
dc.identifier.citationAydin M., Uysalli Y., Özgönül E., Morova B., Tiryaki F., Firat-Karalar E. N. , DOĞAN B., Kiraz A., "An LED-Based structured illumination microscope using a digital micromirror device and GPU accelerated image reconstruction", PLoS ONE, cilt.17, sa.9 September, 2022
dc.identifier.doi10.1371/journal.pone.0273990
dc.identifier.issn1932-6203
dc.identifier.issue9 September
dc.identifier.urihttps://www.scopus.com/inward/record.uri?partnerID=HzOxMe3b&scp=85137696430&origin=inward
dc.identifier.urihttps://hdl.handle.net/11424/283953
dc.identifier.volume17
dc.language.isoeng
dc.relation.ispartofPLoS ONE
dc.rightsinfo:eu-repo/semantics/openAccess
dc.subjectTemel Bilimler
dc.subjectNatural Sciences
dc.subjectTemel Bilimler (SCI)
dc.subjectDoğa Bilimleri Genel
dc.subjectÇOK DİSİPLİNLİ BİLİMLER
dc.subjectNatural Sciences (SCI)
dc.subjectNATURAL SCIENCES, GENERAL
dc.subjectMULTIDISCIPLINARY SCIENCES
dc.subjectMultidisipliner
dc.subjectMultidisciplinary
dc.titleAn LED-Based structured illumination microscope using a digital micromirror device and GPU accelerated image reconstruction
dc.typearticle
dspace.entity.typePublication
local.avesis.id009ec524-c26d-451c-881b-0ca7d77faf0a
local.indexed.atPUBMED
local.indexed.atSCOPUS
relation.isAuthorOfPublicationa9bc5daa-70d8-426a-a198-3e5753ae7958
relation.isAuthorOfPublication.latestForDiscoverya9bc5daa-70d8-426a-a198-3e5753ae7958

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