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1.
Light Sci Appl ; 12(1): 265, 2023 Nov 07.
Article in English | MEDLINE | ID: mdl-37932249

ABSTRACT

Sepsis is a dysregulated immune response to infection that leads to organ dysfunction and is associated with a high incidence and mortality rate. The lack of reliable biomarkers for diagnosing and prognosis of sepsis is a major challenge in its management. We aimed to investigate the potential of three-dimensional label-free CD8 + T cell morphology as a biomarker for sepsis. This study included three-time points in the sepsis recovery cohort (N = 8) and healthy controls (N = 20). Morphological features and spatial distribution within cells were compared among the patients' statuses. We developed a deep learning model to predict the diagnosis and prognosis of sepsis using the internal cell morphology. Correlation between the morphological features and clinical indices were analysed. Cell morphological features and spatial distribution differed significantly between patients with sepsis and healthy controls and between the survival and non-survival groups. The model for predicting the diagnosis and prognosis of sepsis showed an area under the receiver operating characteristic curve of nearly 100% with only a few cells, and a strong correlation between the morphological features and clinical indices was observed. Our study highlights the potential of three-dimensional label-free CD8 + T cell morphology as a promising biomarker for sepsis. This approach is rapid, requires a minimum amount of blood samples, and has the potential to provide valuable information for the early diagnosis and prognosis of sepsis.

2.
Nat Methods ; 20(11): 1645-1660, 2023 Nov.
Article in English | MEDLINE | ID: mdl-37872244

ABSTRACT

Quantitative phase imaging, integrated with artificial intelligence, allows for the rapid and label-free investigation of the physiology and pathology of biological systems. This review presents the principles of various two-dimensional and three-dimensional label-free phase imaging techniques that exploit refractive index as an intrinsic optical imaging contrast. In particular, we discuss artificial intelligence-based analysis methodologies for biomedical studies including image enhancement, segmentation of cellular or subcellular structures, classification of types of biological samples and image translation to furnish subcellular and histochemical information from label-free phase images. We also discuss the advantages and challenges of artificial intelligence-enabled quantitative phase imaging analyses, summarize recent notable applications in the life sciences, and cover the potential of this field for basic and industrial research in the life sciences.


Subject(s)
Artificial Intelligence , Biological Science Disciplines , Image Enhancement , Imaging, Three-Dimensional/methods
3.
Medicina (Kaunas) ; 59(8)2023 Jul 31.
Article in English | MEDLINE | ID: mdl-37629692

ABSTRACT

Background and Objectives: Multiple factors are associated with postoperative functional outcomes, such as acute kidney injury (AKI), following partial nephrectomy (PN). The pre-, peri-, and postoperative factors are heavily intertwined and change dynamically, making it difficult to predict postoperative renal function. Therefore, we aimed to build an artificial intelligence (AI) model that utilizes perioperative factors to predict residual renal function and incidence of AKI following PN. Methods and Materials: This retrospective study included 785 patients (training set 706, test set 79) from six tertiary referral centers who underwent open or robotic PN. Forty-four perioperative features were used as inputs to train the AI prediction model. XG-Boost and genetic algorithms were used for the final model selection and to determine feature importance. The primary outcome measure was immediate postoperative serum creatinine (Cr) level. The secondary outcome was the incidence of AKI (estimated glomerular filtration rate (eGFR) < 60 mL/h). The average difference between the true and predicted serum Cr levels was considered the mean absolute error (MAE) and was used as a model evaluation parameter. Results: An AI model for predicting immediate postoperative serum Cr levels was selected from 2000 candidates by providing the lowest MAE (0.03 mg/dL). The model-predicted immediate postoperative serum Cr levels correlated closely with the measured values (R2 = 0.9669). The sensitivity and specificity of the model for predicting AKI were 85.5% and 99.7% in the training set, and 100.0% and 100.0% in the test set, respectively. The limitations of this study included its retrospective design. Conclusions: Our AI model successfully predicted accurate serum Cr levels and the likelihood of AKI. The accuracy of our model suggests that personalized guidelines to optimize multidisciplinary plans involving pre- and postoperative care need to be developed.


Subject(s)
Acute Kidney Injury , Artificial Intelligence , Creatinine , Nephrectomy , Humans , Male , Female , Adult , Middle Aged , Aged , Acute Kidney Injury/diagnosis , Acute Kidney Injury/etiology , Machine Learning , Models, Theoretical , Nephrectomy/adverse effects , Postoperative Period , Retrospective Studies
4.
Heliyon ; 9(8): e18297, 2023 Aug.
Article in English | MEDLINE | ID: mdl-37576294

ABSTRACT

Hematology analysis, a common clinical test for screening various diseases, has conventionally required a chemical staining process that is time-consuming and labor-intensive. To reduce the costs of chemical staining, label-free imaging can be utilized in hematology analysis. In this work, we exploit optical diffraction tomography and the fully convolutional one-stage object detector or FCOS, a deep learning architecture for object detection, to develop a label-free hematology analysis framework. Detected cells are classified into four groups: red blood cell, abnormal red blood cell, platelet, and white blood cell. In the results, the trained object detection model showed superior detection performance for blood cells in refractive index tomograms (0.977 mAP) and also showed high accuracy in the four-class classification of blood cells (0.9708 weighted F1 score, 0.9712 total accuracy). For further verification, mean corpuscular volume (MCV) and mean corpuscular hemoglobin (MCH) were compared with values obtained from reference hematology equipment, with our results showing reasonable correlation in both MCV (0.905) and MCH (0.889). This study provides a successful demonstration of the proposed framework in detecting and classifying blood cells using optical diffraction tomography for label-free hematology analysis.

5.
Investig Clin Urol ; 64(3): 255-264, 2023 05.
Article in English | MEDLINE | ID: mdl-37341005

ABSTRACT

PURPOSE: Total kidney volume (TKV) measurement is crucial for selecting treatment candidates in autosomal dominant polycystic kidney disease (ADPKD). We developed and investigated the performance of fully-automated 3D-volumetry model and applied it to software as a service (SaaS) for clinical support on tolvaptan prescription in ADPKD patients. MATERIALS AND METHODS: Computed tomography scans of ADPKD patients taken between January 2000 and June 2022 were acquired from seven institutions. The quality of the images was manually reviewed in advance. The acquired dataset was split into training, validation, and test datasets at a ratio of 8.5:1:0.5. Convolutional, neural network-based automatic segmentation model was trained to obtain 3D segment mask for TKV measurement. The algorithm consisted of three steps: data preprocessing, ADPKD area extraction, and post-processing. After performance validation with the Dice score, 3D-volumetry model was applied to SaaS which is based on Mayo imaging classification for ADPKD. RESULTS: A total of 753 cases with 95,117 slices were included. The differences between the ground-truth ADPKD kidney mask and the predicted ADPKD kidney mask were negligible, with intersection over union >0.95. The post-process filter successfully removed false alarms. The test-set performance was homogeneously equal and the Dice score of the model was 0.971; after post-processing, it improved to 0.979. The SaaS calculated TKV from uploaded Digital Imaging and Communications in Medicine images and classified patients according to height-adjusted TKV for age. CONCLUSIONS: Our artificial intelligence-3D volumetry model exhibited effective, feasible, and non-inferior performance compared with that of human experts and successfully predicted the rapid ADPKD progressor.


Subject(s)
Polycystic Kidney, Autosomal Dominant , Humans , Polycystic Kidney, Autosomal Dominant/diagnostic imaging , Polycystic Kidney, Autosomal Dominant/drug therapy , Tolvaptan/therapeutic use , Artificial Intelligence , Feasibility Studies , Disease Progression , Glomerular Filtration Rate
6.
Sci Rep ; 13(1): 9847, 2023 06 17.
Article in English | MEDLINE | ID: mdl-37330568

ABSTRACT

We developed a machine learning algorithm (MLA) that can classify human thyroid cell clusters by exploiting both Papanicolaou staining and intrinsic refractive index (RI) as correlative imaging contrasts and evaluated the effects of this combination on diagnostic performance. Thyroid fine-needle aspiration biopsy (FNAB) specimens were analyzed using correlative optical diffraction tomography, which can simultaneously measure both, the color brightfield of Papanicolaou staining and three-dimensional RI distribution. The MLA was designed to classify benign and malignant cell clusters using color images, RI images, or both. We included 1535 thyroid cell clusters (benign: malignancy = 1128:407) from 124 patients. Accuracies of MLA classifiers using color images, RI images, and both were 98.0%, 98.0%, and 100%, respectively. As information for classification, the nucleus size was mainly used in the color image; however, detailed morphological information of the nucleus was also used in the RI image. We demonstrate that the present MLA and correlative FNAB imaging approach has the potential for diagnosing thyroid cancer, and complementary information from color and RI images can improve the performance of the MLA.


Subject(s)
Thyroid Neoplasms , Thyroid Nodule , Humans , Thyroid Nodule/pathology , Biopsy, Fine-Needle/methods , Refractometry , Thyroid Neoplasms/pathology , Machine Learning , Sensitivity and Specificity
7.
Light Sci Appl ; 11(1): 190, 2022 Jun 23.
Article in English | MEDLINE | ID: mdl-35739098

ABSTRACT

The healthcare industry is in dire need of rapid microbial identification techniques for treating microbial infections. Microbial infections are a major healthcare issue worldwide, as these widespread diseases often develop into deadly symptoms. While studies have shown that an early appropriate antibiotic treatment significantly reduces the mortality of an infection, this effective treatment is difficult to practice. The main obstacle to early appropriate antibiotic treatments is the long turnaround time of the routine microbial identification, which includes time-consuming sample growth. Here, we propose a microscopy-based framework that identifies the pathogen from single to few cells. Our framework obtains and exploits the morphology of the limited sample by incorporating three-dimensional quantitative phase imaging and an artificial neural network. We demonstrate the identification of 19 bacterial species that cause bloodstream infections, achieving an accuracy of 82.5% from an individual bacterial cell or cluster. This performance, comparable to that of the gold standard mass spectroscopy under a sufficient amount of sample, underpins the effectiveness of our framework in clinical applications. Furthermore, our accuracy increases with multiple measurements, reaching 99.9% with seven different measurements of cells or clusters. We believe that our framework can serve as a beneficial advisory tool for clinicians during the initial treatment of infections.

8.
Nat Cell Biol ; 23(12): 1329-1337, 2021 12.
Article in English | MEDLINE | ID: mdl-34876684

ABSTRACT

Simultaneous imaging of various facets of intact biological systems across multiple spatiotemporal scales is a long-standing goal in biology and medicine, for which progress is hindered by limits of conventional imaging modalities. Here we propose using the refractive index (RI), an intrinsic quantity governing light-matter interaction, as a means for such measurement. We show that major endogenous subcellular structures, which are conventionally accessed via exogenous fluorescence labelling, are encoded in three-dimensional (3D) RI tomograms. We decode this information in a data-driven manner, with a deep learning-based model that infers multiple 3D fluorescence tomograms from RI measurements of the corresponding subcellular targets, thereby achieving multiplexed microtomography. This approach, called RI2FL for refractive index to fluorescence, inherits the advantages of both high-specificity fluorescence imaging and label-free RI imaging. Importantly, full 3D modelling of absolute and unbiased RI improves generalization, such that the approach is applicable to a broad range of new samples without retraining to facilitate immediate applicability. The performance, reliability and scalability of this technology are extensively characterized, and its various applications within single-cell profiling at unprecedented scales (which can generate new experimentally testable hypotheses) are demonstrated.


Subject(s)
Deep Learning , Electron Microscope Tomography/methods , Imaging, Three-Dimensional/methods , Single-Cell Analysis/methods , Subcellular Fractions/metabolism , 3T3 Cells , Actins/metabolism , Animals , COS Cells , Cell Line, Tumor , Cell Membrane/metabolism , Cell Nucleolus/metabolism , Cell Nucleus/metabolism , Chlorocebus aethiops , HEK293 Cells , HeLa Cells , Humans , Lipid Droplets/metabolism , Mice , Mitochondria/metabolism , Optical Imaging/methods , Refractometry
9.
JACC Cardiovasc Interv ; 14(9): 1021-1029, 2021 05 10.
Article in English | MEDLINE | ID: mdl-33865741

ABSTRACT

OBJECTIVES: The aim of this study was to develop pre-procedural intravascular ultrasound (IVUS)-based models for predicting the occurrence of stent underexpansion. BACKGROUND: Although post-stenting IVUS has been used to optimize percutaneous coronary intervention, there are no pre-procedural guidelines to estimate the degree of stent expansion and provide preemptive management before stent deployment. METHODS: A total of 618 coronary lesions in 618 patients undergoing percutaneous coronary intervention were randomized into training and test sets in a 5:1 ratio. Following the coregistration of pre- and post-stenting IVUS images, the pre-procedural images and clinical information (stent diameter, length, and inflation pressure; balloon diameter; and maximal balloon pressure) were used to develop a regression model using a convolutional neural network to predict post-stenting stent area. To separate the frames with from those without the occurrence of underexpansion (stent area <5.5 mm2), binary classification models (XGBoost) were developed. RESULTS: Overall, the frequency of stent underexpansion was 15% (5,209 of 34,736 frames). At the frame level, stent areas predicted by the pre-procedural IVUS-based regression model significantly correlated with those measured on post-stenting IVUS (r = 0.802). To predict stent underexpansion, maximal accuracy of 94% (area under the curve = 0.94) was achieved when the convolutional neural network- and mask image-derived features were used for the classification model. At the lesion level, there were significant correlations between predicted and measured minimal stent area (r = 0.832) and between predicted and measured total stent volume (r = 0.958). CONCLUSIONS: Deep-learning algorithms accurately predicted incomplete stent expansion. A data-driven approach may assist clinicians in making treatment decisions to avoid stent underexpansion as a preventable cause of stent failure.


Subject(s)
Deep Learning , Coronary Angiography , Coronary Vessels/diagnostic imaging , Coronary Vessels/surgery , Humans , Stents , Treatment Outcome , Ultrasonography, Interventional
10.
Atherosclerosis ; 324: 69-75, 2021 05.
Article in English | MEDLINE | ID: mdl-33831671

ABSTRACT

BACKGROUND AND AIMS: Although plaque characterization by intravascular ultrasound (IVUS) is important for risk stratification, frame-by-frame analysis of a whole vascular segment is time-consuming. The aim was to develop IVUS-based algorithms for classifying attenuation and calcified plaques. METHODS: IVUS image sets of 598 coronary arteries from 598 patients were randomized into training and test sets with 5:1 ratio. Each IVUS frame at a 0.4-mm interval was circumferentially labeled as one of three classes: attenuated plaque, calcified plaque, or plaque without attenuation or calcification. The model was trained on multi-class classification with 5-fold cross validation. By converting from Cartesian to polar coordinate images, the class corresponding to each array from 0 to 360° was plotted. RESULTS: At the angle-level, Dice similarity coefficients for identifying calcification vs. attenuation vs. none by using ensemble model were 0.79, 0.74 and 0.99, respectively. Also, the maximal accuracy was 98% to classify those groups in the test set. At the frame-level, the model identified the presence of attenuation with 80% sensitivity, 96% specificity, and 93% overall accuracy, and the presence of calcium with 86% sensitivity, 97% specificity, and 96% overall accuracy. In the per-vessel analysis, the attenuation and calcification burden index closely correlated with human measurements (r = 0.89 and r = 0.95, respectively), as did the maximal attenuation and calcification burden index over 4 mm (r = 0.82 and r = 0.91, respectively). The inference times were 0.05 s per frame and 7.8 s per vessel. CONCLUSIONS: Our deep learning algorithms for plaque characterization may assist clinicians in recognizing high-risk coronary lesions.


Subject(s)
Coronary Artery Disease , Deep Learning , Plaque, Atherosclerotic , Coronary Angiography , Coronary Artery Disease/diagnostic imaging , Coronary Vessels/diagnostic imaging , Humans , Plaque, Atherosclerotic/diagnostic imaging , Ultrasonography, Interventional
11.
IEEE Trans Med Imaging ; 40(5): 1508-1518, 2021 05.
Article in English | MEDLINE | ID: mdl-33566760

ABSTRACT

Optical diffraction tomography measures the three-dimensional refractive index map of a specimen and visualizes biochemical phenomena at the nanoscale in a non-destructive manner. One major drawback of optical diffraction tomography is poor axial resolution due to limited access to the three-dimensional optical transfer function. This missing cone problem has been addressed through regularization algorithms that use a priori information, such as non-negativity and sample smoothness. However, the iterative nature of these algorithms and their parameter dependency make real-time visualization impossible. In this article, we propose and experimentally demonstrate a deep neural network, which we term DeepRegularizer, that rapidly improves the resolution of a three-dimensional refractive index map. Trained with pairs of datasets (a raw refractive index tomogram and a resolution-enhanced refractive index tomogram via the iterative total variation algorithm), the three-dimensional U-net-based convolutional neural network learns a transformation between the two tomogram domains. The feasibility and generalizability of our network are demonstrated using bacterial cells and a human leukaemic cell line, and by validating the model across different samples. DeepRegularizer offers more than an order of magnitude faster regularization performance compared to the conventional iterative method. We envision that the proposed data-driven approach can bypass the high time complexity of various image reconstructions in other imaging modalities.


Subject(s)
Deep Learning , Tomography, Optical , Algorithms , Humans , Image Processing, Computer-Assisted , Neural Networks, Computer , Phantoms, Imaging
12.
BME Front ; 2021: 9893804, 2021.
Article in English | MEDLINE | ID: mdl-37849908

ABSTRACT

Objective and Impact Statement. We propose a rapid and accurate blood cell identification method exploiting deep learning and label-free refractive index (RI) tomography. Our computational approach that fully utilizes tomographic information of bone marrow (BM) white blood cell (WBC) enables us to not only classify the blood cells with deep learning but also quantitatively study their morphological and biochemical properties for hematology research. Introduction. Conventional methods for examining blood cells, such as blood smear analysis by medical professionals and fluorescence-activated cell sorting, require significant time, costs, and domain knowledge that could affect test results. While label-free imaging techniques that use a specimen's intrinsic contrast (e.g., multiphoton and Raman microscopy) have been used to characterize blood cells, their imaging procedures and instrumentations are relatively time-consuming and complex. Methods. The RI tomograms of the BM WBCs are acquired via Mach-Zehnder interferometer-based tomographic microscope and classified by a 3D convolutional neural network. We test our deep learning classifier for the four types of bone marrow WBC collected from healthy donors (n=10): monocyte, myelocyte, B lymphocyte, and T lymphocyte. The quantitative parameters of WBC are directly obtained from the tomograms. Results. Our results show >99% accuracy for the binary classification of myeloids and lymphoids and >96% accuracy for the four-type classification of B and T lymphocytes, monocyte, and myelocytes. The feature learning capability of our approach is visualized via an unsupervised dimension reduction technique. Conclusion. We envision that the proposed cell classification framework can be easily integrated into existing blood cell investigation workflows, providing cost-effective and rapid diagnosis for hematologic malignancy.

13.
Investig Clin Urol ; 61(6): 555-564, 2020 11.
Article in English | MEDLINE | ID: mdl-33135401

ABSTRACT

PURPOSE: Volumetry is used in polycystic kidney and liver diseases (PKLDs), including autosomal dominant polycystic kidney disease (ADPKD), to assess disease progression and drug efficiency. However, since no rapid and accurate method for volumetry has been developed, volumetry has not yet been established in clinical practice, hindering the development of therapies for PKLD. This study presents an artificial intelligence (AI)-based volumetry method for PKLD. MATERIALS AND METHODS: The performance of AI was first evaluated in comparison with ground-truth (GT). We trained a V-net-based convolutional neural network on 175 ADPKD computed tomography (CT) segmentations, which served as the GT and were agreed upon by 3 experts using images from 214 patients analyzed with volumetry. The dice similarity coefficient (DSC), interobserver correlation coefficient (ICC), and Bland-Altman plots of 39 GT and AI segmentations in the validation set were compared. Next, the performance of AI on the segmentation of 50 random CT images was compared with that of 11 PKLD specialists based on the resulting DSC and ICC. RESULTS: The DSC and ICC of the AI were 0.961 and 0.999729, respectively. The error rate was within 3% for approximately 95% of the CT scans (error<1%, 46.2%; 1%≤error<3%, 48.7%). Compared with the specialists, AI showed moderate performance. Furthermore, an outlier in our results confirmed that even PKLD specialists can make mistakes in volumetry. CONCLUSIONS: PKLD volumetry using AI was fast and accurate. AI performed comparably to human specialists, suggesting its use may be practical in clinical settings.


Subject(s)
Cysts/pathology , Deep Learning , Liver Diseases/pathology , Polycystic Kidney Diseases/pathology , Artificial Intelligence , Humans
14.
Opt Express ; 28(23): 34835-34847, 2020 Nov 09.
Article in English | MEDLINE | ID: mdl-33182943

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.

15.
EuroIntervention ; 16(5): 404-412, 2020 Aug 28.
Article in English | MEDLINE | ID: mdl-31718998

ABSTRACT

AIMS: The aim of this study was to develop a deep learning model for classifying frames with versus without optical coherence tomography (OCT)-derived thin-cap fibroatheroma (TCFA). METHODS AND RESULTS: A total of 602 coronary lesions from 602 angina patients were randomised into training and test sets in a 4:1 ratio. A DenseNet model was developed to classify OCT frames with or without OCT-derived TCFA. Gradient-weighted class activation mapping was used to visualise the area of attention. In the training sample (35,678 frames of 480 lesions), the model with fivefold cross-validation had an overall accuracy of 91.6±1.7%, sensitivity of 88.7±3.4%, and specificity of 91.8±2.0% (averaged AUC=0.96±0.01) in predicting the presence of TCFA. In the test samples (9,722 frames of 122 lesions), the overall accuracy at the frame level was 92.8% within the lesion (AUC=0.96) and 91.3% in the entire OCT pullback. The correlation between the %TCFA burden per vessel predicted by the model compared with that identified by experts was significant (r=0.87, p<0.001). The region of attention was localised at the site of the thin cap in 93.4% of TCFA-containing frames. Total computational time per pullback was 2.1±0.3 seconds. CONCLUSIONS: A deep learning algorithm can accurately detect an OCT-TCFA with high reproducibility. The time-saving computerised process may assist clinicians to recognise high-risk lesions easily and to make decisions in the catheterisation laboratory.


Subject(s)
Coronary Artery Disease/diagnostic imaging , Plaque, Atherosclerotic/diagnostic imaging , Coronary Vessels/diagnostic imaging , Deep Learning , Humans , Reproducibility of Results , Tomography, Optical Coherence , Ultrasonography, Interventional
16.
Sci Rep ; 9(1): 15239, 2019 10 23.
Article in English | MEDLINE | ID: mdl-31645595

ABSTRACT

In tomographic reconstruction, the image quality of the reconstructed images can be significantly degraded by defects in the measured two-dimensional (2D) raw image data. Despite the importance of screening defective 2D images for robust tomographic reconstruction, manual inspection and rule-based automation suffer from low-throughput and insufficient accuracy, respectively. Here, we present deep learning-enabled quality control for holographic data to produce robust and high-throughput optical diffraction tomography (ODT). The key idea is to distil the knowledge of an expert into a deep convolutional neural network. We built an extensive database of optical field images with clean/noisy annotations, and then trained a binary-classification network based upon the data. The trained network outperformed visual inspection by non-expert users and a widely used rule-based algorithm, with >90% test accuracy. Subsequently, we confirmed that the superior screening performance significantly improved the tomogram quality. To further confirm the trained model's performance and generalisability, we evaluated it on unseen biological cell data obtained with a setup that was not used to generate the training dataset. Lastly, we interpreted the trained model using various visualisation techniques that provided the saliency map underlying each model inference. We envision the proposed network would a powerful lightweight module in the tomographic reconstruction pipeline.

17.
Atherosclerosis ; 288: 168-174, 2019 09.
Article in English | MEDLINE | ID: mdl-31130215

ABSTRACT

BACKGROUND AND AIMS: Although grayscale intravascular ultrasound (IVUS) is commonly used for assessing coronary lesion morphology and optimizing stent implantation, detection of vulnerable plaques by IVUS remains challenging. We aimed to develop machine learning (ML) models for predicting optical coherence tomography-derived thin-cap fibroatheromas (OCT-TCFAs). METHODS: In 517 patients with angina, 414 and 103 coronary lesions were randomized into training vs. test sets. Each of the IVUS-OCT co-registered frames (including 32,807 for training and 8101 for test) was labeled according to the presence vs. absence of OCT-TCFA. Among 1449 computed IVUS features based on two-dimensional geometry and texture, 17 features were finally selected and used in supervised ML with artificial neural network (ANN), support vector machine (SVM), and naïve Bayes. RESULTS: IVUS sections with (vs. without) OCT-TCFA showed a larger plaque burden, and a smaller and eccentric lumen. TCFA-containing sections were characterized by increased ratios of variance, entropy, and kurtosis; reduced ratio of homogeneity within the superficial to the deeper plaque; and decreased smoothness within the fibrous cap. In addition, OCT-TCFA was associated with low ratios of gamma-beta, Nakagami-µ and Nakagami-ω, and a high ratio of Rayleigh-b within the superficial to the deeper region. With a 5-fold cross-validation, the averaged accuracies were 81 ±â€¯5% for ANN (area under the curve [AUC] = 0.80 ±â€¯0.08), 77 ±â€¯4% for SVM (AUC = 0.74 ±â€¯0.05), and 78 ±â€¯2% for naïve Bayes (AUC = 0.77 ±â€¯0.04) for predicting OCT-TCFA. In the test set, ANN and naïve Bayes showed the overall accuracies of >80%. CONCLUSIONS: Supervised ML algorithms with computed IVUS features predicted the presence of OCT-TCFA. This data-driven approach may help clinicians in recognizing high-risk coronary lesions.


Subject(s)
Coronary Artery Disease/diagnostic imaging , Coronary Stenosis/diagnostic imaging , Coronary Vessels/diagnostic imaging , Diagnosis, Computer-Assisted , Image Interpretation, Computer-Assisted , Machine Learning , Neural Networks, Computer , Plaque, Atherosclerotic , Ultrasonography, Interventional , Aged , Bayes Theorem , Coronary Artery Disease/pathology , Coronary Stenosis/pathology , Coronary Vessels/pathology , Disease Progression , Female , Fibrosis , Humans , Male , Middle Aged , Predictive Value of Tests , Reproducibility of Results , Risk Assessment , Risk Factors , Rupture, Spontaneous , Tomography, Optical Coherence
18.
Opt Express ; 27(4): 4927-4943, 2019 Feb 18.
Article in English | MEDLINE | ID: mdl-30876102

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.

19.
J Am Heart Assoc ; 8(4): e011685, 2019 02 19.
Article in English | MEDLINE | ID: mdl-30764731

ABSTRACT

Background An angiography-based supervised machine learning ( ML ) algorithm was developed to classify lesions as having fractional flow reserve ≤0.80 versus >0.80. Methods and Results With a 4:1 ratio, 1501 patients with 1501 intermediate lesions were randomized into training versus test sets. Between the ostium and 10 mm distal to the target lesion, a series of angiographic lumen diameter measurements along the centerline was plotted. The 24 computed angiographic features based on the diameter plot and 4 clinical features (age, sex, body surface area, and involve segment) were used for ML by XGBoost. The model was independently trained and tested by 2000 bootstrap iterations. External validation with 79 patients was conducted. Including all 28 features, the ML model with 5-fold cross-validation in the 1204 training samples predicted fractional flow reserve ≤0.80 with overall diagnostic accuracy of 78±4% (averaged area under the curve: 0.84±0.03). The 12 high-ranking features selected by scatter search were involved segment; body surface area; distal lumen diameter; minimal lumen diameter; length of a lumen diameter <2.0 mm, <1.5 mm, and <1.25 mm; mean lumen diameter within the worst segment; sex; diameter stenosis; distal 5-mm reference lumen diameter; and length of diameter stenosis >70%. Using those 12 features, the ML predicted fractional flow reserve ≤0.80 in the test set with sensitivity of 84%, specificity of 80%, and overall accuracy of 82% (area under the curve: 0.87). The averaged diagnostic accuracy in bootstrap replicates was 81±1% (averaged area under the curve: 0.87±0.01). External validation showed accuracy of 85% (area under the curve: 0.87). Conclusions Angiography-based ML showed good diagnostic performance in identifying ischemia-producing lesions and reduced the need for pressure wires.


Subject(s)
Algorithms , Coronary Angiography/methods , Coronary Stenosis/diagnosis , Coronary Vessels/diagnostic imaging , Fractional Flow Reserve, Myocardial/physiology , Imaging, Three-Dimensional , Machine Learning , Female , Humans , Male , Middle Aged , ROC Curve , Retrospective Studies , Severity of Illness Index
20.
Biosens Bioelectron ; 123: 69-76, 2019 Jan 01.
Article in English | MEDLINE | ID: mdl-30321758

ABSTRACT

We present a rapid and label-free method for hematologic screening for diseases and syndromes, utilizing quantitative phase imaging (QPI) and machine learning. We aim to establish an efficient blood examination framework that does not suffer from the drawbacks of conventional blood assays, which are incapable of profiling single cells or require labeling procedures. Our method involves the synergistic employment of QPI and machine learning. The high-dimensional refractive index information arising from the QPI-based profiling of single red blood cells is processed to screen for diseases and syndromes using machine learning, which can utilize high-dimensional data beyond the human level. Accurate screening for iron-deficiency anemia, reticulocytosis, hereditary spherocytosis, and diabetes mellitus is demonstrated (>98% accuracy) using the proposed method. Furthermore, we highlight the synergy between QPI and machine learning in the proposed method by analyzing the performance of the method.


Subject(s)
Biosensing Techniques , Erythrocytes , Hematologic Diseases/blood , Holography , Humans , Machine Learning , Microscopy , Reticulocytosis
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