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Fitzgerald S, Akhtar J, Schartner E, Ebendorff-Heidepriem H, Mahadevan-Jansen A, Li J. Multimodal Raman spectroscopy and optical coherence tomography for biomedical analysis. JOURNAL OF BIOPHOTONICS 2023; 16:e202200231. [PMID: 36308009 PMCID: PMC10082563 DOI: 10.1002/jbio.202200231] [Citation(s) in RCA: 7] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/20/2022] [Revised: 10/19/2022] [Accepted: 10/26/2022] [Indexed: 06/16/2023]
Abstract
Optical techniques hold great potential to detect and monitor disease states as they are a fast, non-invasive toolkit. Raman spectroscopy (RS) in particular is a powerful label-free method capable of quantifying the biomolecular content of tissues. Still, spontaneous Raman scattering lacks information about tissue morphology due to its inability to rapidly assess a large field of view. Optical Coherence Tomography (OCT) is an interferometric optical method capable of fast, depth-resolved imaging of tissue morphology, but lacks detailed molecular contrast. In many cases, pairing label-free techniques into multimodal systems allows for a more diverse field of applications. Integrating RS and OCT into a single instrument allows for both structural imaging and biochemical interrogation of tissues and therefore offers a more comprehensive means for clinical diagnosis. This review summarizes the efforts made to date toward combining spontaneous RS-OCT instrumentation for biomedical analysis, including insights into primary design considerations and data interpretation.
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Affiliation(s)
- Sean Fitzgerald
- Vanderbilt Biophotonics Center, Nashville, Tennessee, USA
- Department of Biomedical Engineering, Vanderbilt University, Nashville, Tennessee, USA
| | - Jobaida Akhtar
- School of Physical Sciences, The University of Adelaide, Adelaide, South Australia, Australia
- Institute for Photonics and Advanced Sensing, The University of Adelaide, Adelaide, South Australia, Australia
- Australian Research Council Centre of Excellence for Nanoscale BioPhotonics, Adelaide, South Australia, Australia
| | - Erik Schartner
- School of Physical Sciences, The University of Adelaide, Adelaide, South Australia, Australia
- Institute for Photonics and Advanced Sensing, The University of Adelaide, Adelaide, South Australia, Australia
- Australian Research Council Centre of Excellence for Nanoscale BioPhotonics, Adelaide, South Australia, Australia
| | - Heike Ebendorff-Heidepriem
- School of Physical Sciences, The University of Adelaide, Adelaide, South Australia, Australia
- Institute for Photonics and Advanced Sensing, The University of Adelaide, Adelaide, South Australia, Australia
- Australian Research Council Centre of Excellence for Nanoscale BioPhotonics, Adelaide, South Australia, Australia
| | - Anita Mahadevan-Jansen
- Vanderbilt Biophotonics Center, Nashville, Tennessee, USA
- Department of Biomedical Engineering, Vanderbilt University, Nashville, Tennessee, USA
| | - Jiawen Li
- Institute for Photonics and Advanced Sensing, The University of Adelaide, Adelaide, South Australia, Australia
- Australian Research Council Centre of Excellence for Nanoscale BioPhotonics, Adelaide, South Australia, Australia
- School of Electrical and Electronic Engineering, The University of Adelaide, Adelaide, South Australia, Australia
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Ahmed S, Le D, Son T, Adejumo T, Ma G, Yao X. ADC-Net: An Open-Source Deep Learning Network for Automated Dispersion Compensation in Optical Coherence Tomography. Front Med (Lausanne) 2022; 9:864879. [PMID: 35463032 PMCID: PMC9024062 DOI: 10.3389/fmed.2022.864879] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/28/2022] [Accepted: 03/14/2022] [Indexed: 11/23/2022] Open
Abstract
Chromatic dispersion is a common problem to degrade the system resolution in optical coherence tomography (OCT). This study is to develop a deep learning network for automated dispersion compensation (ADC-Net) in OCT. The ADC-Net is based on a modified UNet architecture which employs an encoder-decoder pipeline. The input section encompasses partially compensated OCT B-scans with individual retinal layers optimized. Corresponding output is a fully compensated OCT B-scan with all retinal layers optimized. Two numeric parameters, i.e., peak signal to noise ratio (PSNR) and structural similarity index metric computed at multiple scales (MS-SSIM), were used for objective assessment of the ADC-Net performance and optimal values of 29.95 ± 2.52 dB and 0.97 ± 0.014 were obtained respectively. Comparative analysis of training models, including single, three, five, seven and nine input channels were implemented. The mode with five-input channels was observed to be optimal for ADC-Net training to achieve robust dispersion compensation in OCT.
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Affiliation(s)
- Shaiban Ahmed
- Department of Biomedical Engineering, University of Illinois Chicago, Chicago, IL, United States
| | - David Le
- Department of Biomedical Engineering, University of Illinois Chicago, Chicago, IL, United States
| | - Taeyoon Son
- Department of Biomedical Engineering, University of Illinois Chicago, Chicago, IL, United States
| | - Tobiloba Adejumo
- Department of Biomedical Engineering, University of Illinois Chicago, Chicago, IL, United States
| | - Guangying Ma
- Department of Biomedical Engineering, University of Illinois Chicago, Chicago, IL, United States
| | - Xincheng Yao
- Department of Biomedical Engineering, University of Illinois Chicago, Chicago, IL, United States
- Department of Ophthalmology and Visual Science, University of Illinois Chicago, Chicago, IL, United States
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Ni G, Zhang J, Liu L, Wang X, Du X, Liu J, Liu Y. Detection and compensation of dispersion mismatch for frequency-domain optical coherence tomography based on A-scan's spectrogram. OPTICS EXPRESS 2020; 28:19229-19241. [PMID: 32672204 DOI: 10.1364/oe.393870] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/27/2020] [Accepted: 06/01/2020] [Indexed: 06/11/2023]
Abstract
Balanced dispersion between reference and sample arms is critical in frequency-domain optical coherence tomography (FD-OCT) to perform imaging with the optimal axial resolution, and the spectroscopic analysis of each voxel in FD-OCT can provide the metric of the spectrogram. Here we revisited dispersion mismatch in the spectrogram view using the spectroscopic analysis of voxels in FD-OCT and uncovered that the dispersion mismatch disturbs the A-scan's spectrogram and reshapes the depth-resolved spectra in the spectrogram. Based on this spectroscopic effect of dispersion mismatch on A-scan's spectrogram, we proposed a numerical method to detect dispersion mismatch and perform dispersion compensation for FD-OCT. The proposed method can visually and quantitatively detect and compensate for dispersion mismatch in FD-OCT, with visualization, high sensitivity, and independence from sample structures. Experimental results of tape and mouse eye suggest that this technique can be an effective method for the detection and compensation of dispersion mismatch in FD-OCT.
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Attendu X, Ruis RM, Boudoux C, van Leeuwen TG, Faber DJ. Simple and robust calibration procedure for k-linearization and dispersion compensation in optical coherence tomography. JOURNAL OF BIOMEDICAL OPTICS 2019; 24:1-11. [PMID: 31087833 PMCID: PMC6992960 DOI: 10.1117/1.jbo.24.5.056001] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/13/2018] [Accepted: 03/19/2019] [Indexed: 05/22/2023]
Abstract
In Fourier-domain optical coherence tomography (FD-OCT), proper signal sampling and dispersion compensation are essential steps to achieve optimal axial resolution. These calibration steps can be performed through numerical signal processing, but require calibration information about the system that may require lengthy and complex measurement protocols. We report a highly robust calibration procedure that can simultaneously determine correction vectors for nonlinear wavenumber sampling and dispersion compensation. The proposed method requires only two simple mirror measurements and no prior knowledge about the system's illumination source or detection scheme. This method applies to both spectral domain and swept-source OCT systems. Furthermore, it may be implemented as a low-cost fail-safe to validate the proper function of calibration hardware such as k-clocks. We demonstrate the method's simple implementation, effectiveness, and robustness on both types of OCT systems.
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Affiliation(s)
- Xavier Attendu
- University of Amsterdam, Amsterdam University Medical Center, Department of Biomedical Engineering and Physics, Amsterdam, The Netherlands
- Polytechnique Montreal, Centre d’Optique Photonique et Lasers, Department of Engineering Physics, Montreal, Canada
- Address all correspondence to Xavier Attendu, E-mail:
| | - Roosje M. Ruis
- University of Amsterdam, Amsterdam University Medical Center, Department of Biomedical Engineering and Physics, Amsterdam, The Netherlands
| | - Caroline Boudoux
- Polytechnique Montreal, Centre d’Optique Photonique et Lasers, Department of Engineering Physics, Montreal, Canada
| | - Ton G. van Leeuwen
- University of Amsterdam, Amsterdam University Medical Center, Department of Biomedical Engineering and Physics, Amsterdam, The Netherlands
| | - Dirk J. Faber
- University of Amsterdam, Amsterdam University Medical Center, Department of Biomedical Engineering and Physics, Amsterdam, The Netherlands
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Yudistira D, Janner D, Benchabane S, Pruneri V. Low power consumption integrated acousto-optic filter in domain inverted LiNbO3 superlattice. OPTICS EXPRESS 2010; 18:27181-27190. [PMID: 21196995 DOI: 10.1364/oe.18.027181] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/30/2023]
Abstract
We report on an integrated acousto-optic filter in domain inverted LiNbO3 using a coplanar electrode configuration, which can achieve complete optical switching at electrical powers as low as 50 mW. These values are more than one order of magnitude lower than previously reported results [Opt. Lett. 34, 3205 (2009)]. In order to design the low power consumption devices, we have calculated surface acoustic wave excitation, propagation and acousto-optic interaction in the domain inverted LiNbO3 superlattice using scalar approximation and FEM analysis. Results from both modeling techniques are in good agreement with the experiments, including direct measurement of the acoustic displacement using laser interferometry and acousto-optic performance.
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Affiliation(s)
- D Yudistira
- ICFO-Institut de Ciencies Fotoniques, Mediterranean Technology Park, Barcelona, Spain.
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Aguirre AD, Sawinski J, Huang SW, Zhou C, Denk W, Fujimoto JG. High speed optical coherence microscopy with autofocus adjustment and a miniaturized endoscopic imaging probe. OPTICS EXPRESS 2010; 18:4222-39. [PMID: 20389435 PMCID: PMC2908909 DOI: 10.1364/oe.18.004222] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 11/30/2009] [Revised: 02/05/2010] [Accepted: 02/08/2010] [Indexed: 05/20/2023]
Abstract
Optical coherence microscopy (OCM) is a promising technique for high resolution cellular imaging in human tissues. An OCM system for high-speed en face cellular resolution imaging was developed at 1060 nm wavelength at frame rates up to 5 Hz with resolutions of < 4 microm axial and < 2 microm transverse. The system utilized a novel polarization compensation method to combat wavelength dependent source polarization and achieve broadband electro-optic phase modulation compatible with ultrahigh axial resolution. In addition, the system incorporated an auto-focusing feature that enables precise, near real-time alignment of the confocal and coherence gates in tissue, allowing user-friendly optimization of image quality during the imaging procedure. Ex vivo cellular images of human esophagus, colon, and cervix as well as in vivo results from human skin are presented. Finally, the system design is demonstrated with a miniaturized piezoelectric fiber-scanning probe which can be adapted for laparoscopic and endoscopic imaging applications.
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Affiliation(s)
- Aaron D. Aguirre
- Research Laboratory of Electronics and Department of Electrical Engineering and Computer Science, Massachusetts Institute of Technology, 77 Massachusetts Avenue, Cambridge, MA 02139
USA
- Harvard-MIT Division of Health Sciences and Technology
USA
| | - Juergen Sawinski
- Max-Planck-Institute for Medical Research, Jahnstrasse 29, Heidelberg 69120,
Germany
| | - Shu-Wei Huang
- Research Laboratory of Electronics and Department of Electrical Engineering and Computer Science, Massachusetts Institute of Technology, 77 Massachusetts Avenue, Cambridge, MA 02139
USA
| | - Chao Zhou
- Research Laboratory of Electronics and Department of Electrical Engineering and Computer Science, Massachusetts Institute of Technology, 77 Massachusetts Avenue, Cambridge, MA 02139
USA
| | - Winfried Denk
- Max-Planck-Institute for Medical Research, Jahnstrasse 29, Heidelberg 69120,
Germany
| | - James G. Fujimoto
- Research Laboratory of Electronics and Department of Electrical Engineering and Computer Science, Massachusetts Institute of Technology, 77 Massachusetts Avenue, Cambridge, MA 02139
USA
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Yudistira D, Janner D, Benchabane S, Pruneri V. Integrated acousto-optic polarization converter in a ZX-cut LiNbO(3) waveguide superlattice. OPTICS LETTERS 2009; 34:3205-3207. [PMID: 19838274 DOI: 10.1364/ol.34.003205] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/28/2023]
Abstract
We report an integrated acousto-optic polarization converter exploiting a novel surface acoustic superlattice (S-ASL) transducer. The S-ASL transducer is made of a ZX-cut periodically poled lithium niobate (PPLN) crystal with uniform coplanar electrodes for surface acoustic wave (SAW) generation. For a PPLN period of 20 microm the SAW is excited at an rf of about 190 MHz, while the phase matching occurs at an optical wavelength of around 1456 nm. The measured mode conversion efficiency of 90% at an input rf power of 1 W and the 3 dB optical bandwidth of 2.5 nm confirm the confinement of the SAW between the electrode gap and the constructive interaction along the whole 10 mm electrode length.
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Affiliation(s)
- D Yudistira
- ICFO-Institut de Ciencies Fotoniques, Mediterranean Technology Park, Castelldefels, Barcelona 08860, Spain.
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Kwiek P, Sliwiński A. Some recollections on acousto-optics research at the University of Gdańsk in the light of international cooperation and of the history of Spring Schools on Acousto-Optics and Applications. APPLIED OPTICS 2009; 48:C125-C134. [PMID: 19252605 DOI: 10.1364/ao.48.00c125] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/27/2023]
Abstract
Some historical features of international cooperation that have been a background for originating the idea to organize since 1980 special international meetings named Spring Schools on Acousto-Optics and Applications and for continuing the events until now are presented. Thanks to the establishment of the Spring Schools, the group of acousto-opticians at the Gdańsk University have had the opportunity to exchange scientific experience and continue mutual cooperation in research with several acousto-optic centers and to publish a number of common papers. A few examples from these achievements and some historical facts illustrating research activity in the field of acousto-optics during past 30 years are recollected.
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Affiliation(s)
- Piotr Kwiek
- Institute of Experimental Physics, University of Gdańsk, Wita Stwosza 57, 80-952 Gdańsk, Poland
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Pan YT, Wu ZL, Yuan ZJ, Wang ZG, Du CW. Subcellular imaging of epithelium with time-lapse optical coherence tomography. JOURNAL OF BIOMEDICAL OPTICS 2007; 12:050504. [PMID: 17994860 DOI: 10.1117/1.2800007] [Citation(s) in RCA: 13] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/19/2023]
Abstract
We present the first experimental result of direct delineation of the nuclei of living rat bladder epithelium with ultrahigh-resolution optical coherence tomography (uOCT). We demonstrate that the cellular details embedded in the speckle noise in a uOCT image can be uncovered by time-lapse frame averaging that takes advantage of the micromotion in living biological tissue. The uOCT measurement of the nuclear size (7.9+/-1.4 microm) closely matches the histological evaluation (7.2+/-0.8 microm). Unlike optical coherence microscopy (OCM), which requires a sophisticated high-NA microscopic objective, this approach uses a commercial-grade single achromatic lens (f/10 mm, NA/0.25) and provides a cross-sectional image over 0.6 mm of depth without focus tracking, thus holding great promise of endoscopic optical biopsy for diagnosis and grading of flat epithelial cancer such as carcinoma in situ in vivo.
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