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Salimi M, Tabatabaei N, Villiger M. Artificial neural network for enhancing signal-to-noise ratio and contrast in photothermal optical coherence tomography. Sci Rep 2024; 14:10264. [PMID: 38704427 PMCID: PMC11069506 DOI: 10.1038/s41598-024-60682-7] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/10/2023] [Accepted: 04/25/2024] [Indexed: 05/06/2024] Open
Abstract
Optical coherence tomography (OCT) is a medical imaging method that generates micron-resolution 3D volumetric images of tissues in-vivo. Photothermal (PT)-OCT is a functional extension of OCT with the potential to provide depth-resolved molecular information complementary to the OCT structural images. PT-OCT typically requires long acquisition times to measure small fluctuations in the OCT phase signal. Here, we use machine learning with a neural network to infer the amplitude of the photothermal phase modulation from a short signal trace, trained in a supervised fashion with the ground truth signal obtained by conventional reconstruction of the PT-OCT signal from a longer acquisition trace. Results from phantom and tissue studies show that the developed network improves signal to noise ratio (SNR) and contrast, enabling PT-OCT imaging with short acquisition times and without any hardware modification to the PT-OCT system. The developed network removes one of the key barriers in translation of PT-OCT (i.e., long acquisition time) to the clinic.
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Affiliation(s)
- Mohammadhossein Salimi
- Department of Mechanical Engineering, Lassonde School of Engineering, York University, Toronto, ON, M3J 1P3, Canada
| | - Nima Tabatabaei
- Department of Mechanical Engineering, Lassonde School of Engineering, York University, Toronto, ON, M3J 1P3, Canada.
- Center for Vision Research, York University, Toronto, ON, M3J 1P3, Canada.
| | - Martin Villiger
- Department of Mechanical Engineering, Lassonde School of Engineering, York University, Toronto, ON, M3J 1P3, Canada.
- Harvard Medical School, Wellman Center for Photomedicine, Massachusetts General Hospital, Boston, MA, 02114, USA.
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2
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Salimi M, Roshanfar M, Tabatabaei N, Mosadegh B. Machine Learning-Assisted Short-Wave InfraRed (SWIR) Techniques for Biomedical Applications: Towards Personalized Medicine. J Pers Med 2023; 14:33. [PMID: 38248734 PMCID: PMC10817559 DOI: 10.3390/jpm14010033] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/24/2023] [Revised: 12/08/2023] [Accepted: 12/20/2023] [Indexed: 01/23/2024] Open
Abstract
Personalized medicine transforms healthcare by adapting interventions to individuals' unique genetic, molecular, and clinical profiles. To maximize diagnostic and/or therapeutic efficacy, personalized medicine requires advanced imaging devices and sensors for accurate assessment and monitoring of individual patient conditions or responses to therapeutics. In the field of biomedical optics, short-wave infrared (SWIR) techniques offer an array of capabilities that hold promise to significantly enhance diagnostics, imaging, and therapeutic interventions. SWIR techniques provide in vivo information, which was previously inaccessible, by making use of its capacity to penetrate biological tissues with reduced attenuation and enable researchers and clinicians to delve deeper into anatomical structures, physiological processes, and molecular interactions. Combining SWIR techniques with machine learning (ML), which is a powerful tool for analyzing information, holds the potential to provide unprecedented accuracy for disease detection, precision in treatment guidance, and correlations of complex biological features, opening the way for the data-driven personalized medicine field. Despite numerous biomedical demonstrations that utilize cutting-edge SWIR techniques, the clinical potential of this approach has remained significantly underexplored. This paper demonstrates how the synergy between SWIR imaging and ML is reshaping biomedical research and clinical applications. As the paper showcases the growing significance of SWIR imaging techniques that are empowered by ML, it calls for continued collaboration between researchers, engineers, and clinicians to boost the translation of this technology into clinics, ultimately bridging the gap between cutting-edge technology and its potential for personalized medicine.
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Affiliation(s)
| | - Majid Roshanfar
- Department of Mechanical Engineering, Concordia University, Montreal, QC H3G 1M8, Canada;
| | - Nima Tabatabaei
- Department of Mechanical Engineering, York University, Toronto, ON M3J 1P3, Canada;
| | - Bobak Mosadegh
- Dalio Institute of Cardiovascular Imaging, Department of Radiology, Weill Cornell Medicine, New York, NY 10021, USA
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Sun J, Fang T, Wang H, Wang S. Photothermal optical coherence tomography for 3D live cell detection and mapping. OPTICS CONTINUUM 2023; 2:2468-2483. [PMID: 38665863 PMCID: PMC11044816 DOI: 10.1364/optcon.503577] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/17/2023] [Accepted: 10/27/2023] [Indexed: 04/28/2024]
Abstract
Imaging cells in their 3D environment with molecular specificity is important to cell biology study. Widely used microscopy techniques, such as confocal microscopy, have limited imaging depth when probing cells in optically scattering media. Optical coherence tomography (OCT) can provide millimeter-level depth for imaging of highly scattering media but lacks the contrast to distinguish cells from extracellular matrix or to distinguish between different types of cells. Photothermal OCT (PT-OCT) is a promising technique to obtain molecular contrast at the imaging scale of OCT. Here, we report PT-OCT imaging of live, nanoparticle-labeled cells in 3D. In particular, we demonstrate detection and mapping of single cell in 3D without causing call death, and show the feasibility of 3D cell mapping through optical scattering media. This work presents live cell detection and mapping at an imaging scale that complements the major microscopy techniques, which is potentially useful to study cells in their 3D native or culture environment.
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Affiliation(s)
- Jingyu Sun
- Department of Biomedical Engineering, Stevens Institute of Technology, Hoboken, NJ 07030, USA
| | - Tianqi Fang
- Department of Biomedical Engineering, Stevens Institute of Technology, Hoboken, NJ 07030, USA
| | - Hongjun Wang
- Department of Biomedical Engineering, Stevens Institute of Technology, Hoboken, NJ 07030, USA
| | - Shang Wang
- Department of Biomedical Engineering, Stevens Institute of Technology, Hoboken, NJ 07030, USA
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4
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Zong H, Yurdakul C, Zhao J, Wang Z, Chen F, Ünlü MS, Cheng JX. Bond-selective full-field optical coherence tomography. OPTICS EXPRESS 2023; 31:41202-41218. [PMID: 38087525 DOI: 10.1364/oe.503861] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/29/2023] [Accepted: 11/10/2023] [Indexed: 12/18/2023]
Abstract
Optical coherence tomography (OCT) is a label-free, non-invasive 3D imaging tool widely used in both biological research and clinical diagnosis. Conventional OCT modalities can only visualize specimen tomography without chemical information. Here, we report a bond-selective full-field OCT (BS-FF-OCT), in which a pulsed mid-infrared laser is used to modulate the OCT signal through the photothermal effect, achieving label-free bond-selective 3D sectioned imaging of highly scattering samples. We first demonstrate BS-FF-OCT imaging of 1 µm PMMA beads embedded in agarose gel. Next, we show 3D hyperspectral imaging of up to 75 µm of polypropylene fiber mattress from a standard surgical mask. We then demonstrate BS-FF-OCT imaging on biological samples, including cancer cell spheroids and C. elegans. Using an alternative pulse timing configuration, we finally demonstrate the capability of BS-FF-OCT on imaging a highly scattering myelinated axons region in a mouse brain tissue slice.
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5
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Yanina IY, Tanikawa Y, Genina EA, Dyachenko PA, Tuchina DK, Bashkatov AN, Dolotov LE, Tarakanchikova YV, Terentuk GS, Navolokin NA, Bucharskaya AB, Maslyakova GN, Iga Y, Takimoto S, Tuchin VV. Immersion optical clearing of adipose tissue in rats: ex vivo and in vivo studies. JOURNAL OF BIOPHOTONICS 2022; 15:e202100393. [PMID: 35340116 DOI: 10.1002/jbio.202100393] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/22/2021] [Revised: 03/24/2022] [Accepted: 03/25/2022] [Indexed: 06/14/2023]
Abstract
Optical clearing (OC) of adipose tissue has not been studied enough, although it can be promising in medical applications, including surgery and cosmetology, for example, to visualize blood vessels or increase the permeability of tissues to laser beams. The main objective of this work is to develop technology for OC of abdominal adipose tissue in vivo using hyperosmotic optical clearing agents (OCAs). The maximum OC effect (77%) was observed for ex vivo rat adipose tissue samples exposed to OCA on fructose basis for 90 minutes. For in vivo studies, the maximum effect of OC (65%) was observed when using OCA based on diatrizoic acid and dimethylsulfoxide for 120 minutes. Histological analysis showed that in vivo application of OCAs may induce a limited local necrosis of fat cells. The efficiency of OC correlated with local tissue damage through cell necrosis due to accompanied cell lipolysis.
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Affiliation(s)
- Irina Yu Yanina
- Research-Educational Institute of Optics and Biophotonics, Saratov State University, Saratov, Russia
- Laboratory of Laser Molecular Imaging and Machine Learning, Tomsk State University, Tomsk, Russia
| | | | - Elina A Genina
- Research-Educational Institute of Optics and Biophotonics, Saratov State University, Saratov, Russia
- Laboratory of Laser Molecular Imaging and Machine Learning, Tomsk State University, Tomsk, Russia
| | - Polina A Dyachenko
- Research-Educational Institute of Optics and Biophotonics, Saratov State University, Saratov, Russia
- Laboratory of Laser Molecular Imaging and Machine Learning, Tomsk State University, Tomsk, Russia
| | - Daria K Tuchina
- Research-Educational Institute of Optics and Biophotonics, Saratov State University, Saratov, Russia
- Laboratory of Laser Molecular Imaging and Machine Learning, Tomsk State University, Tomsk, Russia
| | - Alexey N Bashkatov
- Research-Educational Institute of Optics and Biophotonics, Saratov State University, Saratov, Russia
- Laboratory of Laser Molecular Imaging and Machine Learning, Tomsk State University, Tomsk, Russia
| | - Leonid E Dolotov
- Research-Educational Institute of Optics and Biophotonics, Saratov State University, Saratov, Russia
| | | | | | - Nikita A Navolokin
- Science Medical Center, Saratov State University, Saratov, Russia
- Research-Scientific Institute of Fundamental and Clinic Uronephrology, Saratov State Medical University, Saratov, Russia
| | - Alla B Bucharskaya
- Laboratory of Laser Molecular Imaging and Machine Learning, Tomsk State University, Tomsk, Russia
- Science Medical Center, Saratov State University, Saratov, Russia
- Research-Scientific Institute of Fundamental and Clinic Uronephrology, Saratov State Medical University, Saratov, Russia
| | - Galina N Maslyakova
- Science Medical Center, Saratov State University, Saratov, Russia
- Research-Scientific Institute of Fundamental and Clinic Uronephrology, Saratov State Medical University, Saratov, Russia
| | | | | | - Valery V Tuchin
- Research-Educational Institute of Optics and Biophotonics, Saratov State University, Saratov, Russia
- Laboratory of Laser Molecular Imaging and Machine Learning, Tomsk State University, Tomsk, Russia
- Science Medical Center, Saratov State University, Saratov, Russia
- Laboratory of Laser Diagnostics of Technical and Living Systems, Institute of Precision Mechanics and Control, FRC "Saratov Scientific Centre of the Russian Academy of Sciences", Saratov, Russia
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6
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Salimi MH, Villiger M, Tabatabaei N. Three-dimensional opto-thermo-mechanical model for predicting photo-thermal optical coherence tomography responses in multilayer geometries. BIOMEDICAL OPTICS EXPRESS 2022; 13:3416-3433. [PMID: 35781956 PMCID: PMC9208589 DOI: 10.1364/boe.454491] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/24/2022] [Revised: 04/24/2022] [Accepted: 04/25/2022] [Indexed: 06/15/2023]
Abstract
Photothermal optical coherence tomography (PT-OCT) is a functional extension of OCT with the ability to generate qualitative maps of molecular absorptions co-registered with the micron-resolution structural tomograms of OCT. Obtaining refined insight into chemical information from PT-OCT images, however, requires solid understanding of the multifactorial physics behind generation of PT-OCT signals and their dependence on system and sample parameters. Such understanding is needed to decouple the various physical effects involved in the PT-OCT signal to obtain more accurate insight into sample composition. In this work, we propose an analytical model that considers the opto-thermo-mechanical properties of multi-layered samples in 3-D space, eliminating several assumptions that have been limiting previous PT-OCT models. In parametric studies, the model results are compared with experimental signals to investigate the effect of sample and system parameters on the acquired signals. The proposed model and the presented findings open the door for: 1) better understanding of the effects of system parameters and tissue opto-thermo-mechanical properties on experimental signals; 2) informed optimization of experimentation strategies based on sample and system parameters; 3) guidance of downstream signal processing for predicting tissue molecular composition.
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Affiliation(s)
- Mohammad Hossein Salimi
- York University, Lassonde School of Engineering, Department of Mechanical Engineering, Toronto, Canada
| | - Martin Villiger
- York University, Lassonde School of Engineering, Department of Mechanical Engineering, Toronto, Canada
- Harvard Medical School, Massachusetts General Hospital, Wellman Center for Photomedicine, Boston, Massachusetts, USA
| | - Nima Tabatabaei
- York University, Lassonde School of Engineering, Department of Mechanical Engineering, Toronto, Canada
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Deen AD, Van Beusekom HMM, Pfeiffer T, Stam M, Kleijn DD, Wentzel J, Huber R, Van Der Steen AFW, Soest GV, Wang T. Spectroscopic thermo-elastic optical coherence tomography for tissue characterization. BIOMEDICAL OPTICS EXPRESS 2022; 13:1430-1446. [PMID: 35414978 PMCID: PMC8973171 DOI: 10.1364/boe.447911] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/05/2021] [Revised: 01/15/2022] [Accepted: 01/17/2022] [Indexed: 06/14/2023]
Abstract
Optical imaging techniques that provide free space, label free imaging are powerful tools in obtaining structural and biochemical information in biological samples. To date, most of the optical imaging technologies create images with a specific contrast and require multimodality integration to add additional contrast. In this study, we demonstrate spectroscopic Thermo-elastic Optical Coherence Tomography (TE-OCT) as a potential tool in tissue identification. TE-OCT creates images based on two different forms of contrast: optical reflectance and thermo-elastic deformation. TE-OCT uses short laser pulses to induce thermo-elastic tissue deformation and measures the resulting surface displacement using phase-sensitive OCT. In this work we characterized the relation between thermo-elastic displacement and optical absorption, excitation, fluence and illumination area. The experimental results were validated with a 2-dimensional analytical model. Using spectroscopic TE-OCT, the thermo-elastic spectra of elastic phantoms and tissue components in coronary arteries were extracted. Specific tissue components, particularly lipid, an important biomarker for identifying atherosclerotic lesions, can be identified in the TE-OCT spectral response. As a label-free, free-space, dual-contrast, all-optical imaging technique, spectroscopic TE-OCT holds promise for biomedical research and clinical pathology diagnosis.
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Affiliation(s)
- Aaron Doug Deen
- Department of Cardiology, Erasmus University Medical Center, P.O. Box 2040, Rotterdam 3000 CA, The Netherlands
| | - Heleen M. M. Van Beusekom
- Department of Cardiology, Erasmus University Medical Center, P.O. Box 2040, Rotterdam 3000 CA, The Netherlands
| | - Tom Pfeiffer
- Institut für Biomedizinische Optik, Universität zu Lübeck, Peter-Monnik-Weg 4, 23562 Lübeck, Germany
| | - Mathijs Stam
- Department of Cardiology, Erasmus University Medical Center, P.O. Box 2040, Rotterdam 3000 CA, The Netherlands
| | - Dominique De Kleijn
- University Medical Center Utrecht, Heidelberglaan 100, 3584 CX Utrecht, The Netherlands
| | - Jolanda Wentzel
- Department of Cardiology, Erasmus University Medical Center, P.O. Box 2040, Rotterdam 3000 CA, The Netherlands
| | - Robert Huber
- Institut für Biomedizinische Optik, Universität zu Lübeck, Peter-Monnik-Weg 4, 23562 Lübeck, Germany
| | - Antonius F. W. Van Der Steen
- Department of Cardiology, Erasmus University Medical Center, P.O. Box 2040, Rotterdam 3000 CA, The Netherlands
- Shenzhen Institutes of Advanced Technology, Chinese Academy of Sciences, 518055 Shenzhen, China
- Department Imaging Science and Technology, Delft University of Technology, Delft 2600 AA, The Netherlands
| | - Gijs Van Soest
- Department of Cardiology, Erasmus University Medical Center, P.O. Box 2040, Rotterdam 3000 CA, The Netherlands
| | - Tianshi Wang
- Department of Cardiology, Erasmus University Medical Center, P.O. Box 2040, Rotterdam 3000 CA, The Netherlands
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Salimi MH, Villiger M, Tabatabaei N. Transient-mode photothermal optical coherence tomography. OPTICS LETTERS 2021; 46:5703-5706. [PMID: 34780441 PMCID: PMC10801791 DOI: 10.1364/ol.443987] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/23/2021] [Accepted: 10/21/2021] [Indexed: 06/13/2023]
Abstract
Photothermal optical coherence tomography (PT-OCT) is an emerging extension of OCT, which forms images based on both scattering and absorption of light. The speed of PT-OCT, however, has been limited by the necessity for lock-in detection with extensive temporal sampling of the sample's PT response. Here, we demonstrate transient-mode PT-OCT (TM-PT-OCT), which increases the effective A-line rate by orders of magnitude from 10-100 Hz to 1.5-7.5 kHz, by interrogating the sample's transient thermal response to a single diode laser pulse. Functional imaging of moving samples with TM-PT-OCT at video rate is also presented. This significant improvement in imaging speed is expected to open the door for downstream integration of PT-OCT in clinical systems for in vivo imaging.
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Affiliation(s)
- Mohammad Hossein Salimi
- York University, Lassonde School of Engineering, Department of Mechanical Engineering, Toronto, Canada
| | - Martin Villiger
- York University, Lassonde School of Engineering, Department of Mechanical Engineering, Toronto, Canada
- Harvard Medical School, Massachusetts General Hospital, Wellman Center for Photomedicine, Boston, Massachusetts, United States
| | - Nima Tabatabaei
- York University, Lassonde School of Engineering, Department of Mechanical Engineering, Toronto, Canada
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9
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Thapa D, Samadi N, Tabatabaei N. Handheld Thermo-Photonic Device for Rapid, Low-Cost, and On-Site Detection and Quantification of Anti-SARS-CoV-2 Antibody. IEEE SENSORS JOURNAL 2021; 21:18504-18511. [PMID: 35581990 PMCID: PMC8864951 DOI: 10.1109/jsen.2021.3089016] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 05/07/2021] [Revised: 06/09/2021] [Accepted: 06/09/2021] [Indexed: 06/15/2023]
Abstract
With the emergence of vaccines and antibody therapeutics, rapid and scalable platforms are needed to quantify the antibody response of individuals. Lateral flow immunoassay (LFA) based test strips provide a rapid, low-cost, and point-of-care approach to antibody testing against the SARS-CoV-2 virus. These convenient and scalable tests, however, are qualitative in nature and cannot quantify the immune response of the infected and/or vaccinated individuals. This study reports on the development of a rapid, low cost and portable thermo-photonic device that enables sensitive detection and quantification of antibody levels using commercially available COVID-19 Antibody LFAs. Unlike conventional LFA readers, the developed technology is based on sensing the infrared thermal radiation of tag gold nanoparticles following laser excitation (aka photothermal response). Our proof-of-concept results with humanized monoclonal anti-SARS-CoV-2 Spike receptor-binding domain (RBD) IgG demonstrate that the thermo-photonic technology can detect and quantify antibody concentrations within the clinically relevant range and with a limit of detection of [Formula: see text]/ml. The reader in conjunction with antibody LFAs offers a low-cost, portable, and scalable solution for assessment of the degree of immunity in populations, quality control of convalescent plasma donations for antibody therapeutics, and monitoring the immune response of infected individuals and vaccine recipients.
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Affiliation(s)
- Damber Thapa
- Department of Mechanical EngineeringYork UniversityTorontoONM3J 1P3Canada
| | - Nakisa Samadi
- Department of Mechanical EngineeringYork UniversityTorontoONM3J 1P3Canada
| | - Nima Tabatabaei
- Department of Mechanical EngineeringYork UniversityTorontoONM3J 1P3Canada
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