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Tayal S, Tiwari S, Mehta DS. Label-free high-resolution white light quantitative phase nanoscopy system. JOURNAL OF BIOPHOTONICS 2023; 16:e202200298. [PMID: 36602467 DOI: 10.1002/jbio.202200298] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/28/2022] [Revised: 11/17/2022] [Accepted: 01/02/2023] [Indexed: 06/17/2023]
Abstract
We present a high-resolution white light quantitative phase nanoscopy (WLQPN) system that can be utilized to visualize nanoparticles and subcellular features of the biological specimens. The five-phase shifting technique, along with deconvolution, is adopted to obtain super-resolution in phase imaging. The phase shifting technique can provide full detector resolution, making it beneficial as compared to the well-known Fourier analysis method. The Fourier transform method requires minimum angle of sin - 1 3 f x λ , where f x is maximum achievable spatial frequency. It limits the highest achievable resolution to much below the actual diffraction limit of the system. Thus, to obtain a high-resolution phase map of the biological specimen, a two-step process is adopted. First, the phase map is recovered using the five-phase shifting algorithm, with full detector spatial resolution. Second, the complex field is obtained from the recovered phase map and further processed using the Richardson Lucy total variation deconvolution algorithm to obtain super-resolution phase images. The present technique was tested on 1951 USAF resolution chart, 200 nm polystyrene beads and Escherichia coli bacteria using a 50×, 0.55NA objective lens. The 200 nm polystyrene beads are visually resolvable and subcellular features of the E. coli bacteria are also observed, suggesting a significant improvement in the resolution.
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Affiliation(s)
- Shilpa Tayal
- Bio-photonics and Green Photonics Laboratory, Department of Physics, Indian Institute of Technology Delhi, New Delhi, India
| | - Shubham Tiwari
- Bio-photonics and Green Photonics Laboratory, Department of Physics, Indian Institute of Technology Delhi, New Delhi, India
| | - Dalip Singh Mehta
- Bio-photonics and Green Photonics Laboratory, Department of Physics, Indian Institute of Technology Delhi, New Delhi, India
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Mann P, Singh V, Tayal S, Thapa P, Mehta DS. White light phase shifting interferometric microscopy with whole slide imaging for quantitative analysis of biological samples. JOURNAL OF BIOPHOTONICS 2022; 15:e202100386. [PMID: 35373920 DOI: 10.1002/jbio.202100386] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/16/2021] [Revised: 03/21/2022] [Accepted: 03/30/2022] [Indexed: 06/14/2023]
Abstract
In this paper, we demonstrate the white light phase shifting interferometer employed as whole slide scanner and phase profiler for determining qualitative and quantitative information over large field-of-view (FOV). Experiments were performed on human erythrocytes and MG63 Osteosarcoma cells. Here, we have recorded microscopic images and phase shifted white light interferograms simultaneously in a stepped manner. Sample slide is translated in transverse direction such that there exists a correlation between the adjacent frames, and they were stitched together using correlation functions. Final stitched image has a FOV of 0.24 × 1.14 mm with high resolution ~0.8 μm. Circular Hough transform algorithm is implemented to the resulting image for cell counting and five-step phase shifting algorithm is utilised to retrieve the phase profiles over a large FOV. Further, this technique is utilised to study the difference between normal and anaemic erythrocytes. Significant changes are observed in anaemic cells as compared to normal cells.
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Affiliation(s)
- Priyanka Mann
- Bio-Photonics and Green-Photonics Laboratory, Department of Physics, Indian Institute of Technology Delhi, New Delhi, India
| | - Veena Singh
- Bio-Photonics and Green-Photonics Laboratory, Department of Physics, Indian Institute of Technology Delhi, New Delhi, India
| | - Shilpa Tayal
- Bio-Photonics and Green-Photonics Laboratory, Department of Physics, Indian Institute of Technology Delhi, New Delhi, India
| | - Pramila Thapa
- Bio-Photonics and Green-Photonics Laboratory, Department of Physics, Indian Institute of Technology Delhi, New Delhi, India
| | - Dalip Singh Mehta
- Bio-Photonics and Green-Photonics Laboratory, Department of Physics, Indian Institute of Technology Delhi, New Delhi, India
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Wen K, Gao Z, Fang X, Liu M, Zheng J, Ma Y, Zalevsky Z, Gao P. Structured illumination microscopy with partially coherent illumination for phase and fluorescent imaging. OPTICS EXPRESS 2021; 29:33679-33693. [PMID: 34809175 DOI: 10.1364/oe.435783] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/02/2021] [Accepted: 09/23/2021] [Indexed: 06/13/2023]
Abstract
This study presents a partially coherent illumination based (PCI-based) SIM apparatus for dual-modality (phase and fluorescent) microscopic imaging. The partially coherent illumination (PCI) is generated by placing a rotating diffuser on a monochromatic laser beam, which suppresses speckle noise in the dual-modality images and endows the apparatus with sound sectioning capability. With this system, label-free quantitative phase and super-resolved/sectioned fluorescent images can be obtained for the same sample. We have demonstrated the superiority of the system in phase imaging of transparent cells with high endogenous contrast and in a quantitative manner. In the meantime, we have also demonstrated fluorescent imaging of fluorescent beads, rat tail crosscut, wheat anther, and hibiscus pollen with super-resolution and optical sectioning. We envisage that the proposed method can be applied to many fields, including but not limited to biomedical, industrial, chemistry fields.
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Dynamic Speckle Illumination Digital Holographic Microscopy by Doubly Scattered System. PHOTONICS 2021. [DOI: 10.3390/photonics8070276] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
Abstract
The coherent noise always exists in digital holographic microscopy due to the laser source, degrading the image quality. A method of speckle suppression using the dynamic speckle illumination, produced by double-moving diffusers, is presented in digital holographic microscopy. The space–time correlation functions are theoretically analyzed from the statistics distribution in the doubly and singly scattered system, respectively. The configuration of double-moving diffusers is demonstrated to have better performance in speckle suppression compared with the single diffuser and moving-static double diffusers cases. The experiment results verify the feasibility of the approach. The presented approach only requires a single shot interferogram to realize the speckle reduction, accordingly it has the potential application in real-time measurement.
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Chang T, Ryu D, Jo Y, Choi G, Min HS, Park Y. Calibration-free quantitative phase imaging using data-driven aberration modeling. OPTICS EXPRESS 2020; 28:34835-34847. [PMID: 33182943 DOI: 10.1364/oe.412009] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/08/2020] [Accepted: 10/09/2020] [Indexed: 06/11/2023]
Abstract
We present a data-driven approach to compensate for optical aberrations in calibration-free quantitative phase imaging (QPI). Unlike existing methods that require additional measurements or a background region to correct aberrations, we exploit deep learning techniques to model the physics of aberration in an imaging system. We demonstrate the generation of a single-shot aberration-corrected field image by using a U-net-based deep neural network that learns a translation between an optical field with aberrations and an aberration-corrected field. The high fidelity and stability of our method is demonstrated on 2D and 3D QPI measurements of various confluent eukaryotic cells and microbeads, benchmarking against the conventional method using background subtractions.
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Jiao J, Gao Y, Li S, Anh ND, Su PC, Kim SW, Sandeep CSS, Kim YJ. Surface third-harmonic generation at a two-photon-polymerized micro-interferometer for real-time on-chip refractive index monitoring. OPTICS EXPRESS 2019; 27:29196-29206. [PMID: 31684657 DOI: 10.1364/oe.27.029196] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/15/2019] [Accepted: 09/11/2019] [Indexed: 06/10/2023]
Abstract
A micro-interferometer based on surface third-harmonic generation (THG) at two-photon-polymerized SU-8 cuboids for real-time monitoring of the refractive index changes of target fluids, which can be easily integrated into microfluidic photonic systems, is demonstrated. The third-harmonic (TH) interferogram is selectively generated only from the target volume by a simple vertical pumping, thereby eliminating the needs for complicated coupling and alignments. The dependence of the generated TH to the input pump polarization state is thoroughly investigated. The THG efficiency by linearly polarized excitation is found to be 2.6 × 10-7, which is the most efficient at the SU-8-air interface and independent of the input polarization direction. The THG efficiency from the SU-8-air interface is 12.17 times higher than that from the glass-air interface and 4.93 times higher than that from the SU-8-glass interface. Real-time monitoring of argon gas pressure is demonstrated using the micro- interferometer. The surface TH from two-photon-polymerized 3D structures offers novel design flexibility to the nonlinear optical light sources for microfluidic and microelectronic devices.
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LEE KYEOREH, SHIN SEUNGWOO, YAQOOB ZAHID, SO PETERTC, PARK YONGKEUN. Low-coherent optical diffraction tomography by angle-scanning illumination. JOURNAL OF BIOPHOTONICS 2019; 12:e201800289. [PMID: 30597743 PMCID: PMC6470054 DOI: 10.1002/jbio.201800289] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/09/2018] [Revised: 11/27/2018] [Accepted: 12/28/2018] [Indexed: 05/20/2023]
Abstract
Temporally low-coherent optical diffraction tomography (ODT) is proposed and demonstrated based on angle-scanning Mach-Zehnder interferometry. Using a digital micromirror device based on diffractive tilting, the full-field interference of incoherent light is successfully maintained during every angle-scanning sequences. Further, current ODT reconstruction principles for temporally incoherent illuminations are thoroughly reviewed and developed. Several limitations of incoherent illumination are also discussed, such as the nondispersive assumption, optical sectioning capacity and illumination angle limitation. Using the proposed setup and reconstruction algorithms, low-coherent ODT imaging of plastic microspheres, human red blood cells and rat pheochromocytoma cells is experimentally demonstrated.
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Affiliation(s)
- KYEOREH LEE
- Department of Physics, Korea Advanced Institute of Science and Technology (KAIST), Daejeon 34141, Republic of Korea
- KAIST Institute for Health Science and Technology, Daejeon 34141, Republic of Korea
| | - SEUNGWOO SHIN
- Department of Physics, Korea Advanced Institute of Science and Technology (KAIST), Daejeon 34141, Republic of Korea
- KAIST Institute for Health Science and Technology, Daejeon 34141, Republic of Korea
| | - ZAHID YAQOOB
- Laser Biomedical Research Center, G. R. Harrison Spectroscopy Laboratory, Massachusetts Institute of Technology (MIT), Cambridge, Massachusetts 02139, USA
| | - PETER T. C. SO
- Laser Biomedical Research Center, G. R. Harrison Spectroscopy Laboratory, Massachusetts Institute of Technology (MIT), Cambridge, Massachusetts 02139, USA
- Department of Mechanical Engineering, MIT, Cambridge, Massachusetts 02139, USA
- Department of Biological Engineering, MIT, Cambridge, Massachusetts 02139, USA
| | - YONGKEUN PARK
- Department of Physics, Korea Advanced Institute of Science and Technology (KAIST), Daejeon 34141, Republic of Korea
- KAIST Institute for Health Science and Technology, Daejeon 34141, Republic of Korea
- Tomocube Inc., Daejeon 34051, Republic of Korea
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Choi G, Ryu D, Jo Y, Kim YS, Park W, Min HS, Park Y. Cycle-consistent deep learning approach to coherent noise reduction in optical diffraction tomography. OPTICS EXPRESS 2019; 27:4927-4943. [PMID: 30876102 DOI: 10.1364/oe.27.004927] [Citation(s) in RCA: 30] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/16/2023]
Abstract
We present a deep neural network to reduce coherent noise in three-dimensional quantitative phase imaging. Inspired by the cycle generative adversarial network, the denoising network was trained to learn a transform between two image domains: clean and noisy refractive index tomograms. The unique feature of this network, distinct from previous machine learning approaches employed in the optical imaging problem, is that it uses unpaired images. The learned network quantitatively demonstrated its performance and generalization capability through denoising experiments of various samples. We concluded by applying our technique to reduce the temporally changing noise emerging from focal drift in time-lapse imaging of biological cells. This reduction cannot be performed using other optical methods for denoising.
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Recent Progress on Aberration Compensation and Coherent Noise Suppression in Digital Holography. APPLIED SCIENCES-BASEL 2018. [DOI: 10.3390/app8030444] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/17/2022]
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Kandel ME, Fanous M, Best-Popescu C, Popescu G. Real-time halo correction in phase contrast imaging. BIOMEDICAL OPTICS EXPRESS 2018; 9:623-635. [PMID: 29552399 PMCID: PMC5854064 DOI: 10.1364/boe.9.000623] [Citation(s) in RCA: 26] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/13/2017] [Revised: 12/24/2017] [Accepted: 12/24/2017] [Indexed: 05/19/2023]
Abstract
As a label-free, nondestructive method, phase contrast is by far the most popular microscopy technique for routine inspection of cell cultures. However, features of interest such as extensions near cell bodies are often obscured by a glow, which came to be known as the halo. Advances in modeling image formation have shown that this artifact is due to the limited spatial coherence of the illumination. Nevertheless, the same incoherent illumination is responsible for superior sensitivity to fine details in the phase contrast geometry. Thus, there exists a trade-off between high-detail (incoherent) and low-detail (coherent) imaging systems. In this work, we propose a method to break this dichotomy, by carefully mixing corrected low-frequency and high-frequency data in a way that eliminates the edge effect. Specifically, our technique is able to remove halo artifacts at video rates, requiring no manual interaction or a priori point spread function measurements. To validate our approach, we imaged standard spherical beads, sperm cells, tissue slices, and red blood cells. We demonstrate real-time operation with a time evolution study of adherent neuron cultures whose neurites are revealed by our halo correction. We show that with our novel technique, we can quantify cell growth in large populations, without the need for thresholds and system variant calibration.
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Affiliation(s)
- Mikhail E. Kandel
- Department of Electrical and Computer Engineering, the University of Illinois at Urbana-Champaign, 306 N. Wright Street, Urbana, IL 61801, USA
| | - Michael Fanous
- Department of Bioengineering, the University of Illinois at Urbana-Champaign, 306 N. Wright Street, Urbana, IL 61801, USA
| | - Catherine Best-Popescu
- Department of Bioengineering, the University of Illinois at Urbana-Champaign, 306 N. Wright Street, Urbana, IL 61801, USA
| | - Gabriel Popescu
- Department of Electrical and Computer Engineering, the University of Illinois at Urbana-Champaign, 306 N. Wright Street, Urbana, IL 61801, USA
- Department of Bioengineering, the University of Illinois at Urbana-Champaign, 306 N. Wright Street, Urbana, IL 61801, USA
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Farrokhi H, Rohith TM, Boonruangkan J, Han S, Kim H, Kim SW, Kim YJ. High-brightness laser imaging with tunable speckle reduction enabled by electroactive micro-optic diffusers. Sci Rep 2017; 7:15318. [PMID: 29127389 PMCID: PMC5681511 DOI: 10.1038/s41598-017-15553-9] [Citation(s) in RCA: 25] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/15/2017] [Accepted: 10/30/2017] [Indexed: 11/30/2022] Open
Abstract
High coherence of lasers is desirable in high-speed, high-resolution, and wide-field imaging. However, it also causes unavoidable background speckle noise thus degrades the image quality in traditional microscopy and more significantly in interferometric quantitative phase imaging (QPI). QPI utilizes optical interference for high-precision measurement of the optical properties where the speckle can severely distort the information. To overcome this, we demonstrated a light source system having a wide tunability in the spatial coherence over 43% by controlling the illumination angle, scatterer's size, and the rotational speed of an electroactive-polymer rotational micro-optic diffuser. Spatially random phase modulation was implemented for the lower speckle imaging with over a 50% speckle reduction without a significant degradation in the temporal coherence. Our coherence control technique will provide a unique solution for a low-speckle, full-field, and coherent imaging in optically scattering media in the fields of healthcare sciences, material sciences and high-precision engineering.
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Affiliation(s)
- Hamid Farrokhi
- School of Mechanical and Aerospace Engineering, Nanyang Technological University, 50 Nanyang Avenue, Singapore, 639798, Singapore
- Wellman Center for Photomedicine, Massachusetts General Hospital and Harvard Medical School, Boston, Massachusetts, 02114, USA
| | - Thazhe Madam Rohith
- School of Mechanical and Aerospace Engineering, Nanyang Technological University, 50 Nanyang Avenue, Singapore, 639798, Singapore
| | - Jeeranan Boonruangkan
- School of Mechanical and Aerospace Engineering, Nanyang Technological University, 50 Nanyang Avenue, Singapore, 639798, Singapore
| | - Seunghwoi Han
- Department of Mechanical Engineering, Korea Advanced Institute of Science and Technology (KAIST), Daejeon, 34141, Republic of Korea
| | - Hyunwoong Kim
- Department of Mechanical Engineering, Korea Advanced Institute of Science and Technology (KAIST), Daejeon, 34141, Republic of Korea
| | - Seung-Woo Kim
- Department of Mechanical Engineering, Korea Advanced Institute of Science and Technology (KAIST), Daejeon, 34141, Republic of Korea
| | - Young-Jin Kim
- School of Mechanical and Aerospace Engineering, Nanyang Technological University, 50 Nanyang Avenue, Singapore, 639798, Singapore.
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