51
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Fregin B, Czerwinski F, Biedenweg D, Girardo S, Gross S, Aurich K, Otto O. High-throughput single-cell rheology in complex samples by dynamic real-time deformability cytometry. Nat Commun 2019; 10:415. [PMID: 30679420 PMCID: PMC6346011 DOI: 10.1038/s41467-019-08370-3] [Citation(s) in RCA: 57] [Impact Index Per Article: 11.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/17/2018] [Accepted: 01/08/2019] [Indexed: 11/25/2022] Open
Abstract
In life sciences, the material properties of suspended cells have attained significance close to that of fluorescent markers but with the advantage of label-free and unbiased sample characterization. Until recently, cell rheological measurements were either limited by acquisition throughput, excessive post processing, or low-throughput real-time analysis. Real-time deformability cytometry expanded the application of mechanical cell assays to fast on-the-fly phenotyping of large sample sizes, but has been restricted to single material parameters as the Young's modulus. Here, we introduce dynamic real-time deformability cytometry for comprehensive cell rheological measurements at up to 100 cells per second. Utilizing Fourier decomposition, our microfluidic method is able to disentangle cell response to complex hydrodynamic stress distributions and to determine viscoelastic parameters independent of cell shape. We demonstrate the application of our technology for peripheral blood cells in whole blood samples including the discrimination of B- and CD4+ T-lymphocytes by cell rheological properties.
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Affiliation(s)
- Bob Fregin
- Zentrum für Innovationskompetenz: Humorale Immunreaktionen bei kardiovaskulären Erkrankungen, Universität Greifswald, Fleischmannstr. 42, 17489, Greifswald, Germany
| | - Fabian Czerwinski
- Zentrum für Innovationskompetenz: Humorale Immunreaktionen bei kardiovaskulären Erkrankungen, Universität Greifswald, Fleischmannstr. 42, 17489, Greifswald, Germany
| | - Doreen Biedenweg
- Universitätsmedizin Greifswald, Fleischmannstr. 8, 17489, Greifswald, Germany
| | - Salvatore Girardo
- Biotechnology Center, Center for Molecular and Cellular Bioengineering, Technische Universität Dresden, Tatzberg 47/49, 01307, Dresden, Germany
| | - Stefan Gross
- Universitätsmedizin Greifswald, Fleischmannstr. 8, 17489, Greifswald, Germany
- Deutsches Zentrum für Herz-Kreislauf-Forschung e.V., Standort Greifswald, Universitätsmedizin Greifswald, Fleischmannstr. 42, 17489, Greifswald, Germany
| | - Konstanze Aurich
- Universitätsmedizin Greifswald, Fleischmannstr. 8, 17489, Greifswald, Germany
| | - Oliver Otto
- Zentrum für Innovationskompetenz: Humorale Immunreaktionen bei kardiovaskulären Erkrankungen, Universität Greifswald, Fleischmannstr. 42, 17489, Greifswald, Germany.
- Deutsches Zentrum für Herz-Kreislauf-Forschung e.V., Standort Greifswald, Universitätsmedizin Greifswald, Fleischmannstr. 42, 17489, Greifswald, Germany.
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52
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Go T, Yoon GY, Lee SJ. Learning-based automatic sensing and size classification of microparticles using smartphone holographic microscopy. Analyst 2019; 144:1751-1760. [DOI: 10.1039/c8an02157k] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
A microparticle classifier is established by synergetic integration of smartphone-based digital in-line holographic microscopy and supervised machine learning.
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Affiliation(s)
- Taesik Go
- Department of Mechanical Engineering
- Pohang University of Science and Technology
- Pohang
- Republic of Korea
| | - Gun Young Yoon
- Department of Mechanical Engineering
- Pohang University of Science and Technology
- Pohang
- Republic of Korea
| | - Sang Joon Lee
- Department of Mechanical Engineering
- Pohang University of Science and Technology
- Pohang
- Republic of Korea
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53
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Kim G, Jo Y, Cho H, Min HS, Park Y. Learning-based screening of hematologic disorders using quantitative phase imaging of individual red blood cells. Biosens Bioelectron 2019; 123:69-76. [DOI: 10.1016/j.bios.2018.09.068] [Citation(s) in RCA: 24] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/27/2018] [Revised: 09/18/2018] [Accepted: 09/19/2018] [Indexed: 10/28/2022]
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54
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Ugele M, Weniger M, Stanzel M, Bassler M, Krause SW, Friedrich O, Hayden O, Richter L. Label-Free High-Throughput Leukemia Detection by Holographic Microscopy. ADVANCED SCIENCE (WEINHEIM, BADEN-WURTTEMBERG, GERMANY) 2018; 5:1800761. [PMID: 30581697 PMCID: PMC6299719 DOI: 10.1002/advs.201800761] [Citation(s) in RCA: 29] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/16/2018] [Revised: 07/18/2018] [Indexed: 05/12/2023]
Abstract
Complete blood count and differentiation of leukocytes (DIFF) belong to the most frequently performed laboratory diagnostic tests. Here, a flow cytometry-based method for label-free DIFF of untouched leukocytes by digital holographic microscopy on the rich phase contrast of peripheral leukocyte images, using highly controlled 2D hydrodynamic focusing conditions is reported. Principal component analysis of morphological characteristics of the reconstructed images allows classification of nine leukocyte types, in addition to different types of leukemia and demonstrates disappearance of acute myeloid leukemia cells in remission. To exclude confounding effects, the classification strategy is tested by the analysis of 20 blinded clinical samples. Here, 70% of the specimens are correctly classified with further 20% classifications close to a correct diagnosis. Taken together, the findings indicate a broad clinical applicability of the cytometry method for automated and reagent-free diagnosis of hematological disorders.
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Affiliation(s)
- Matthias Ugele
- In‐Vitro DX and BioscienceDepartment of Strategy and InnovationSiemens Healthcare GmbHGünther‐Scharowsky‐Str. 191058ErlangenGermany
- Department of Chemical and Biological EngineeringInstitute of Medical BiotechnologyFriedrich‐Alexander‐University Erlangen‐NurembergPaul‐Gordan‐Str. 391052ErlangenGermany
| | - Markus Weniger
- In‐Vitro DX and BioscienceDepartment of Strategy and InnovationSiemens Healthcare GmbHGünther‐Scharowsky‐Str. 191058ErlangenGermany
| | - Manfred Stanzel
- In‐Vitro DX and BioscienceDepartment of Strategy and InnovationSiemens Healthcare GmbHGünther‐Scharowsky‐Str. 191058ErlangenGermany
| | - Michael Bassler
- Analysesysteme und SensorikFraunhofer IMMCarl‐Zeiss‐Str. 18‐2055129MainzGermany
| | - Stefan W. Krause
- Medizinische Klinik 5Hämatologie and Internistische OnkologieUlmenweg 1891054ErlangenGermany
| | - Oliver Friedrich
- Department of Chemical and Biological EngineeringInstitute of Medical BiotechnologyFriedrich‐Alexander‐University Erlangen‐NurembergPaul‐Gordan‐Str. 391052ErlangenGermany
| | - Oliver Hayden
- In‐Vitro DX and BioscienceDepartment of Strategy and InnovationSiemens Healthcare GmbHGünther‐Scharowsky‐Str. 191058ErlangenGermany
- Heinz‐Nixdorf‐Chair of Biomedical ElectronicsDepartment of Electrical and Computer EngineeringTranslaTUMCampus Klinikum rechts der IsarTechnical University of MunichIsmaningerstr. 2281675MunichGermany
| | - Lukas Richter
- In‐Vitro DX and BioscienceDepartment of Strategy and InnovationSiemens Healthcare GmbHGünther‐Scharowsky‐Str. 191058ErlangenGermany
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55
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Park C, Shin S, Park Y. Generalized quantification of three-dimensional resolution in optical diffraction tomography using the projection of maximal spatial bandwidths. JOURNAL OF THE OPTICAL SOCIETY OF AMERICA. A, OPTICS, IMAGE SCIENCE, AND VISION 2018; 35:1891-1898. [PMID: 30461848 DOI: 10.1364/josaa.35.001891] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/10/2023]
Abstract
Optical diffraction tomography (ODT) is a three-dimensional (3D) quantitative phase imaging technique, which enables the reconstruction of the 3D refractive index (RI) distribution of a transparent sample. Due to its fast, non-invasive, and quantitative imaging capability, ODT has emerged as a powerful tool for various applications. However, the spatial resolution of ODT has only been quantified along the lateral and axial directions for limited conditions; it has not been investigated for arbitrary-oblique directions. In this paper, we systematically quantify the 3D spatial resolution of ODT by exploiting the spatial bandwidth of the reconstructed scattering potential. The 3D spatial resolution is calculated for various types of systems, including the illumination-scanning, sample-rotation, and hybrid scanning-rotation methods. In particular, using the calculated 3D spatial resolution, we provide the spatial resolution as well as the arbitrary sliced angle. Furthermore, to validate the present method, the point spread function of an ODT system is experimentally obtained using the deconvolution of a 3D RI distribution of a microsphere and is compared with the calculated resolution.
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56
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Zhang Y, Judson RL. Evaluation of holographic imaging cytometer holomonitor M4® motility applications. Cytometry A 2018; 93:1125-1131. [PMID: 30343513 DOI: 10.1002/cyto.a.23635] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/08/2018] [Revised: 09/13/2018] [Accepted: 09/19/2018] [Indexed: 12/11/2022]
Abstract
Digital holographic cytometry (DHC) and other methods of quantitative phase imaging permit extended time-lapse imaging of mammalian cells in the absence of induced cellular toxicity. Manufactured DHC platforms equipped with semi-automated image acquisition, segmentation, and analysis software packages (or modules) for assessing cell behavior are now commercially available. When housed in mammalian cell incubators these cytometers offer the potential to monitor and quantify a range of cellular behaviors without disrupting routine culture. Realization of this potential requires validation against established standards. Two proprietary software modules for assessing cellular motility available using the HoloMonitor M4 DHC platform were evaluated on human melanoma cells lines with known relative motility and metastatic potential. One such software package, the Track Cells module, was run during routine culture. In addition, the Wound Healing module was conducted in parallel with established transwell migration and invasion assays. Each module was evaluated for reproducibility and correlation to established assays. Both software modules reliably recorded increased cellular motility in the metastatic 1205Lu line as compared with the non-metastatic WM793 line. In a direct comparison of the two propriety DHC software modules and two established transwell assays, the relative cell motilities were well correlated. The granularity of data provided by the Track Cells module permitted the additional identification of rare hyper-motile cells in the metastatic population and the distinction of motility from division associated displacement. The two HoloMonitor M4 DHC proprietary software modules for assessing cellular motility yielded reproducible results that were well-correlated with established standards. © 2018 International Society for Advancement of Cytometry.
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Affiliation(s)
- Yuntian Zhang
- Helen Diller Family Comprehensive Cancer Center, University of California San Francisco, San Francisco, California, 94143.,Department of Dermatology, University of California San Francisco, San Francisco, California, 94115
| | - Robert L Judson
- Helen Diller Family Comprehensive Cancer Center, University of California San Francisco, San Francisco, California, 94143.,Department of Dermatology, University of California San Francisco, San Francisco, California, 94115
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57
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Kim YS, Lee S, Jung J, Shin S, Choi HG, Cha GH, Park W, Lee S, Park Y. Combining Three-Dimensional Quantitative Phase Imaging and Fluorescence Microscopy for the Study of Cell Pathophysiology. THE YALE JOURNAL OF BIOLOGY AND MEDICINE 2018; 91:267-277. [PMID: 30258314 PMCID: PMC6153632] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Indexed: 10/25/2022]
Abstract
Quantitative phase imaging (QPI) has emerged as one of the powerful imaging tools for the study of live cells in a non-invasive manner. In particular, multimodal approaches combining QPI and fluorescence microscopic techniques have been recently developed for superior spatiotemporal resolution as well as high molecular specificity. In this review, we briefly summarize recent advances in three-dimensional QPI combined with fluorescence techniques for the correlative study of cell pathophysiology. Through this review, biologists and clinicians can be provided with insights on this rapidly growing field of research and may find broader applications to investigate unrevealed nature in cell physiology and related diseases.
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Affiliation(s)
- Young Seo Kim
- Department of Chemical and Biomolecular Engineering, Korea Advanced Institute of Science and Technology (KAIST), Daejeon, Republic of Korea,Tomocube Inc., Daejeon, Republic of Korea,KAIST Institute of Health Science and Technology, KAIST, Daejeon, Republic of Korea
| | - SangYun Lee
- KAIST Institute of Health Science and Technology, KAIST, Daejeon, Republic of Korea,Department of Physics, KAIST, Daejeon, Republic of Korea
| | - JaeHwang Jung
- KAIST Institute of Health Science and Technology, KAIST, Daejeon, Republic of Korea,Department of Physics, KAIST, Daejeon, Republic of Korea
| | - Seungwoo Shin
- KAIST Institute of Health Science and Technology, KAIST, Daejeon, Republic of Korea,Department of Physics, KAIST, Daejeon, Republic of Korea
| | - He-Gwon Choi
- Department of Medical Science, Chungnam National University, Daejeon, Republic of Korea
| | - Guang-Ho Cha
- Department of Medical Science, Chungnam National University, Daejeon, Republic of Korea
| | - Weisun Park
- Tomocube Inc., Daejeon, Republic of Korea,KAIST Institute of Health Science and Technology, KAIST, Daejeon, Republic of Korea,Department of Physics, KAIST, Daejeon, Republic of Korea
| | - Sumin Lee
- Tomocube Inc., Daejeon, Republic of Korea
| | - YongKeun Park
- Tomocube Inc., Daejeon, Republic of Korea,KAIST Institute of Health Science and Technology, KAIST, Daejeon, Republic of Korea,Department of Physics, KAIST, Daejeon, Republic of Korea,To whom all correspondence should be addressed: YongKeun Park, Department of Physics, KAIST, Daejeon, Republic of Korea;
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58
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Go T, Kim JH, Byeon H, Lee SJ. Machine learning-based in-line holographic sensing of unstained malaria-infected red blood cells. JOURNAL OF BIOPHOTONICS 2018; 11:e201800101. [PMID: 29676064 DOI: 10.1002/jbio.201800101] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/23/2018] [Revised: 04/16/2018] [Accepted: 04/18/2018] [Indexed: 06/08/2023]
Abstract
Accurate and immediate diagnosis of malaria is important for medication of the infectious disease. Conventional methods for diagnosing malaria are time consuming and rely on the skill of experts. Therefore, an automatic and simple diagnostic modality is essential for healthcare in developing countries that lack the expertise of trained microscopists. In the present study, a new automatic sensing method using digital in-line holographic microscopy (DIHM) combined with machine learning algorithms was proposed to sensitively detect unstained malaria-infected red blood cells (iRBCs). To identify the RBC characteristics, 13 descriptors were extracted from segmented holograms of individual RBCs. Among the 13 descriptors, 10 features were highly statistically different between healthy RBCs (hRBCs) and iRBCs. Six machine learning algorithms were applied to effectively combine the dominant features and to greatly improve the diagnostic capacity of the present method. Among the classification models trained by the 6 tested algorithms, the model trained by the support vector machine (SVM) showed the best accuracy in separating hRBCs and iRBCs for training (n = 280, 96.78%) and testing sets (n = 120, 97.50%). This DIHM-based artificial intelligence methodology is simple and does not require blood staining. Thus, it will be beneficial and valuable in the diagnosis of malaria.
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Affiliation(s)
- Taesik Go
- Department of Mechanical Engineering, Pohang University of Science and Technology, Pohang, Republic of Korea
| | - Jun H Kim
- Department of Mechanical Engineering, Pohang University of Science and Technology, Pohang, Republic of Korea
| | - Hyeokjun Byeon
- Department of Mechanical Engineering, Pohang University of Science and Technology, Pohang, Republic of Korea
| | - Sang J Lee
- Department of Mechanical Engineering, Pohang University of Science and Technology, Pohang, Republic of Korea
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59
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Qiao H, Wu J, Li X, Shoreh MH, Fan J, Dai Q. GPU-based deep convolutional neural network for tomographic phase microscopy with ℓ1 fitting and regularization. JOURNAL OF BIOMEDICAL OPTICS 2018; 23:1-7. [PMID: 29905037 DOI: 10.1117/1.jbo.23.6.066003] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/13/2018] [Accepted: 05/21/2018] [Indexed: 06/08/2023]
Abstract
Tomographic phase microscopy (TPM) is a unique imaging modality to measure the three-dimensional refractive index distribution of transparent and semitransparent samples. However, the requirement of the dense sampling in a large range of incident angles restricts its temporal resolution and prevents its application in dynamic scenes. Here, we propose a graphics processing unit-based implementation of a deep convolutional neural network to improve the performance of phase tomography, especially with much fewer incident angles. As a loss function for the regularized TPM, the ℓ1-norm sparsity constraint is introduced for both data-fidelity term and gradient-domain regularizer in the multislice beam propagation model. We compare our method with several state-of-the-art algorithms and obtain at least 14 dB improvement in signal-to-noise ratio. Experimental results on HeLa cells are also shown with different levels of data reduction.
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Affiliation(s)
- Hui Qiao
- Tsinghua University, Department of Automation, Beijing, China
| | - Jiamin Wu
- Tsinghua University, Department of Automation, Beijing, China
| | - Xiaoxu Li
- Tsinghua University, Department of Automation, Beijing, China
| | - Morteza H Shoreh
- École Polytechnique Fédérale de Lausanne, School of Engineering, Laboratory of Optics, Lausanne, Switzerland
| | - Jingtao Fan
- Tsinghua University, Department of Automation, Beijing, China
| | - Qionghai Dai
- Tsinghua University, Department of Automation, Beijing, China
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60
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Majeed H, Nguyen TH, Kandel ME, Kajdacsy-Balla A, Popescu G. Label-free quantitative evaluation of breast tissue using Spatial Light Interference Microscopy (SLIM). Sci Rep 2018; 8:6875. [PMID: 29720678 PMCID: PMC5932029 DOI: 10.1038/s41598-018-25261-7] [Citation(s) in RCA: 22] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/16/2017] [Accepted: 04/03/2018] [Indexed: 11/16/2022] Open
Abstract
Breast cancer is the most common type of cancer among women worldwide. The standard histopathology of breast tissue, the primary means of disease diagnosis, involves manual microscopic examination of stained tissue by a pathologist. Because this method relies on qualitative information, it can result in inter-observer variation. Furthermore, for difficult cases the pathologist often needs additional markers of malignancy to help in making a diagnosis, a need that can potentially be met by novel microscopy methods. We present a quantitative method for label-free breast tissue evaluation using Spatial Light Interference Microscopy (SLIM). By extracting tissue markers of malignancy based on the nanostructure revealed by the optical path-length, our method provides an objective, label-free and potentially automatable method for breast histopathology. We demonstrated our method by imaging a tissue microarray consisting of 68 different subjects −34 with malignant and 34 with benign tissues. Three-fold cross validation results showed a sensitivity of 94% and specificity of 85% for detecting cancer. Our disease signatures represent intrinsic physical attributes of the sample, independent of staining quality, facilitating classification through machine learning packages since our images do not vary from scan to scan or instrument to instrument.
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Affiliation(s)
- Hassaan Majeed
- Quantitative Light Imaging (QLI) Lab, Beckman Institute of Advanced Science and Technology, University of Illinois at Urbana Champaign, 405 N Matthews, Urbana, IL 61801, USA
| | - Tan Huu Nguyen
- Quantitative Light Imaging (QLI) Lab, Beckman Institute of Advanced Science and Technology, University of Illinois at Urbana Champaign, 405 N Matthews, Urbana, IL 61801, USA
| | - Mikhail Eugene Kandel
- Quantitative Light Imaging (QLI) Lab, Beckman Institute of Advanced Science and Technology, University of Illinois at Urbana Champaign, 405 N Matthews, Urbana, IL 61801, USA
| | - Andre Kajdacsy-Balla
- Department of Pathology, University of Illinois at Chicago, 840 South Wood Street, Suite 130 CSN, Chicago, IL 60612, USA
| | - Gabriel Popescu
- Quantitative Light Imaging (QLI) Lab, Beckman Institute of Advanced Science and Technology, University of Illinois at Urbana Champaign, 405 N Matthews, Urbana, IL 61801, USA.
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61
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Singla N, Srivastava V, Mehta DS. Development of full-field optical spatial coherence tomography system for automated identification of malaria using the multilevel ensemble classifier. JOURNAL OF BIOPHOTONICS 2018; 11:e201700279. [PMID: 29297620 DOI: 10.1002/jbio.201700279] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/27/2017] [Revised: 12/30/2017] [Accepted: 01/01/2018] [Indexed: 06/07/2023]
Abstract
Malaria is a life-threatening infectious blood disease affecting humans and other animals caused by parasitic protozoans belonging to the Plasmodium type especially in developing countries. The gold standard method for the detection of malaria is through the microscopic method of chemically treated blood smears. We developed an automated optical spatial coherence tomographic system using a machine learning approach for a fast identification of malaria cells. In this study, 28 samples (15 healthy, 13 malaria infected stages of red blood cells) were imaged by the developed system and 13 features were extracted. We designed a multilevel ensemble-based classifier for the quantitative prediction of different stages of the malaria cells. The proposed classifier was used by repeating k-fold cross validation dataset and achieve a high-average accuracy of 97.9% for identifying malaria infected late trophozoite stage of cells. Overall, our proposed system and multilevel ensemble model has a substantial quantifiable potential to detect the different stages of malaria infection without staining or expert.
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Affiliation(s)
- Neeru Singla
- Department of Electrical and Instrumentation Engineering, Thapar Institute of Engineering and Technology, Patiala, Punjab, India
| | - Vishal Srivastava
- Department of Electrical and Instrumentation Engineering, Thapar Institute of Engineering and Technology, Patiala, Punjab, India
| | - Dalip Singh Mehta
- Department of Physics, Indian Institute of Technology Delhi, New Delhi, India
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62
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Kim G, Lee S, Shin S, Park Y. Three-dimensional label-free imaging and analysis of Pinus pollen grains using optical diffraction tomography. Sci Rep 2018; 8:1782. [PMID: 29379106 PMCID: PMC5788986 DOI: 10.1038/s41598-018-20113-w] [Citation(s) in RCA: 24] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/29/2017] [Accepted: 01/11/2018] [Indexed: 01/05/2023] Open
Abstract
The structure of pollen grains is related to the reproductive function of the plants. Here, three-dimensional (3D) refractive index maps were obtained for individual conifer pollen grains using optical diffraction tomography (ODT). The 3D morphological features of pollen grains from pine trees were investigated using measured refractive index maps, in which distinct substructures were clearly distinguished and analyzed. Morphological and physiochemical parameters of the pollen grains were quantified from the obtained refractive index (RI) maps and used to quantitatively study the interspecific differences of pollen grains from different strains. Our results demonstrate that ODT can assess the structure of pollen grains. This label-free and rapid 3D imaging approach may provide a new platform for understanding the physiology of pollen grains.
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Affiliation(s)
- Geon Kim
- Korea Advanced Institute of Science and Technology (KAIST), Department of Physics, 291 Daehak-ro, 34141, Daejeon, Republic of Korea
- KAIST, KI for Health Science and Technology, 291 Daehak-ro, 34141, Daejeon, Republic of Korea
| | - SangYun Lee
- Korea Advanced Institute of Science and Technology (KAIST), Department of Physics, 291 Daehak-ro, 34141, Daejeon, Republic of Korea
- KAIST, KI for Health Science and Technology, 291 Daehak-ro, 34141, Daejeon, Republic of Korea
| | - Seungwoo Shin
- Korea Advanced Institute of Science and Technology (KAIST), Department of Physics, 291 Daehak-ro, 34141, Daejeon, Republic of Korea
- KAIST, KI for Health Science and Technology, 291 Daehak-ro, 34141, Daejeon, Republic of Korea
| | - YongKeun Park
- Korea Advanced Institute of Science and Technology (KAIST), Department of Physics, 291 Daehak-ro, 34141, Daejeon, Republic of Korea.
- KAIST, KI for Health Science and Technology, 291 Daehak-ro, 34141, Daejeon, Republic of Korea.
- Tomocube, Inc., 48 Yuseong-daero 1184 Beon-gil, 34109, Daejoen, Republic of Korea.
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63
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Choi I, Lee K, Park Y. Compensation of aberration in quantitative phase imaging using lateral shifting and spiral phase integration. OPTICS EXPRESS 2017; 25:30771-30779. [PMID: 29221103 DOI: 10.1364/oe.25.030771] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/28/2017] [Accepted: 11/09/2017] [Indexed: 06/07/2023]
Abstract
We present a simple and effective method to eliminate system aberrations in quantitative phase imaging. Using spiral phase integration, complete information about system aberration is calculated from three laterally shifted phase images. The present method is especially useful when measuring confluent samples in which acquisition of background area is challenging. To demonstrate validity and applicability, we present measurements of various types of samples including microspheres, HeLa cells, and mouse brain tissue. Working conditions and limitations are systematically analyzed and discussed.
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64
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Lee M, Shin S, Park Y. Reconstructions of refractive index tomograms via a discrete algebraic reconstruction technique. OPTICS EXPRESS 2017; 25:27415-27430. [PMID: 29092215 DOI: 10.1364/oe.25.027415] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/05/2017] [Accepted: 10/20/2017] [Indexed: 05/27/2023]
Abstract
Optical diffraction tomography (ODT) provides three-dimensional refractive index (RI) tomograms of a transparent microscopic object. However, because of the finite numerical aperture of objective lenses, ODT has a limited access to diffracted light and suffers from poor spatial resolution, particularly along the axial direction. To overcome the limitation of the quality of RI tomography, we present an algorithm that accurately reconstructs RI tomography of a specimen with discrete and uniform RI, using prior information about the RI levels. Through simulations and experiments on various samples, including microspheres, red blood cells, and water droplets, we show that the proposed method can precisely reconstruct RI tomograms of samples which have discrete and homogenous RI distributions in the presence of the missing information and noise.
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65
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Hejna M, Jorapur A, Song JS, Judson RL. High accuracy label-free classification of single-cell kinetic states from holographic cytometry of human melanoma cells. Sci Rep 2017; 7:11943. [PMID: 28931937 PMCID: PMC5607248 DOI: 10.1038/s41598-017-12165-1] [Citation(s) in RCA: 39] [Impact Index Per Article: 5.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/06/2017] [Accepted: 08/31/2017] [Indexed: 02/07/2023] Open
Abstract
Digital holographic cytometry (DHC) permits label-free visualization of adherent cells. Dozens of cellular features can be derived from segmentation of hologram-derived images. However, the accuracy of single cell classification by these features remains limited for most applications, and lack of standardization metrics has hindered independent experimental comparison and validation. Here we identify twenty-six DHC-derived features that provide biologically independent information across a variety of mammalian cell state transitions. When trained on these features, machine-learning algorithms achieve blind single cell classification with up to 95% accuracy. Using classification accuracy to guide platform optimization, we develop methods to standardize holograms for the purpose of kinetic single cell cytometry. Applying our approach to human melanoma cells treated with a panel of cancer therapeutics, we track dynamic changes in cellular behavior and cell state over time. We provide the methods and computational tools for optimizing DHC for kinetic single adherent cell classification.
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Affiliation(s)
- Miroslav Hejna
- Department of Physics, University of Illinois at Urbana-Champaign, 1110 W Green St, Urbana, IL, 61801, USA.,Carl R. Woese Institute for Genomic Biology, University of Illinois at Urbana-Champaign, 1206 W Gregory Dr., Urbana, IL, 61801, USA
| | - Aparna Jorapur
- Helen Diller Family Comprehensive Cancer Center, University of California, San Francisco, 1450 3rd Street, Box# 3111, San Francisco, CA, 94158, USA.,Department of Dermatology, University of California, San Francisco, 1701 Divisadero Street, San Francisco, CA, 94115, USA
| | - Jun S Song
- Department of Physics, University of Illinois at Urbana-Champaign, 1110 W Green St, Urbana, IL, 61801, USA. .,Carl R. Woese Institute for Genomic Biology, University of Illinois at Urbana-Champaign, 1206 W Gregory Dr., Urbana, IL, 61801, USA.
| | - Robert L Judson
- Helen Diller Family Comprehensive Cancer Center, University of California, San Francisco, 1450 3rd Street, Box# 3111, San Francisco, CA, 94158, USA. .,Department of Dermatology, University of California, San Francisco, 1701 Divisadero Street, San Francisco, CA, 94115, USA.
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