Large area kidney imaging for pre-transplant evaluation using real-time robotic optical coherence tomography.

Optical coherence tomography (OCT) can be used to image microstructures of human kidneys. However, current OCT probes exhibit inadequate field-of-view, leading to potentially biased kidney assessment. Here we present a robotic OCT system where the probe is integrated to a robot manipulator, enabling wider area (covers an area of 106.39 mm by 37.70 mm) spatially-resolved imaging. Our system comprehensively scans the kidney surface at the optimal altitude with preoperative path planning and OCT image-based feedback control scheme. It further parameterizes and visualizes microstructures of large area. We verified the system positioning accuracy on a phantom as 0.0762 ± 0.0727 mm and showed the clinical feasibility by scanning ex vivo kidneys. The parameterization reveals vasculatures beneath the kidney surface. Quantification on the proximal convoluted tubule of a human kidney yields clinical-relevant information. The system promises to assess kidney viability for transplantation after collecting a vast amount of whole-organ parameterization and patient outcomes data.

Large Area Kidney Imaging for Pre-transplant Evaluation using Real-Time Robotic Optical Coherence Tomography.

Optical coherence tomography (OCT) is a high-resolution imaging modality that can be used to image microstructures of human kidneys. These images can be analyzed to evaluate the viability of the organ for transplantation. However, current OCT devices suffer from insufficient field-of-view, leading to biased examination outcomes when only small portions of the kidney can be assessed. Here we present a robotic OCT system where an OCT probe is integrated with a robotic manipulator, enabling wider area spatially-resolved imaging. With the proposed system, it becomes possible to comprehensively scan the kidney surface and provide large area parameterization of the microstructures. We verified the probe tracking accuracy with a phantom as 0.0762±0.0727 mm and demonstrated its clinical feasibility by scanning ex vivo kidneys. The parametric map exhibits fine vasculatures beneath the kidney surface. Quantitative analysis on the proximal convoluted tubule from the ex vivo human kidney yields highly clinical-relevant information.

Monte Carlo Simulation of Diffuse Optical Spectroscopy for 3D Modeling of Dental Tissues.

Three-dimensional precise models of teeth are critical for a variety of dental procedures, including orthodontics, prosthodontics, and implantology. While X-ray-based imaging devices are commonly used to obtain anatomical information about teeth, optical devices offer a promising alternative for acquiring 3D data of teeth without exposing patients to harmful radiation. Previous research has not examined the optical interactions with all dental tissue compartments nor provided a thorough analysis of detected signals at various boundary conditions for both transmittance and reflectance modes. To address this gap, a GPU-based Monte Carlo (MC) method has been utilized to assess the feasibility of diffuse optical spectroscopy (DOS) systems operating at 633 nm and 1310 nm wavelengths for simulating light-tissue interactions in a 3D tooth model. The results show that the system's sensitivity to detect pulp signals at both 633 nm and 1310 nm wavelengths is higher in the transmittance compared with that in the reflectance mode. Analyzing the recorded absorbance, reflectance, and transmittance data verified that surface reflection at boundaries can improve the detected signal, especially from the pulp region in both reflectance and transmittance DOS systems. These findings could ultimately lead to more accurate and effective dental diagnosis and treatment.

Deep ensemble learning for automated non-advanced AMD classification using optimized retinal layer segmentation and SD-OCT scans.

BACKGROUND: Accurate retinal layer segmentation in optical coherence tomography (OCT) images is crucial for quantitatively analyzing age-related macular degeneration (AMD) and monitoring its progression. However, previous retinal segmentation models depend on experienced experts and manually annotating retinal layers is time-consuming. On the other hand, accuracy of AMD diagnosis is directly related to the segmentation model's performance. To address these issues, we aimed to improve AMD detection using optimized retinal layer segmentation and deep ensemble learning. METHOD: We integrated a graph-cut algorithm with a cubic spline to automatically annotate 11 retinal boundaries. The refined images were fed into a deep ensemble mechanism that combined a Bagged Tree and end-to-end deep learning classifiers. We tested the developed deep ensemble model on internal and external datasets. RESULTS: The total error rates for our segmentation model using the boundary refinement approach was significantly lower than OCT Explorer segmentations (1.7% vs. 7.8%, p-value = 0.03). We utilized the refinement approach to quantify 169 imaging features using Zeiss SD-OCT volume scans. The presence of drusen and thickness of total retina, neurosensory retina, and ellipsoid zone to inner-outer segment (EZ-ISOS) thickness had higher contributions to AMD classification compared to other features. The developed ensemble learning model obtained a higher diagnostic accuracy in a shorter time compared with two human graders. The area under the curve (AUC) for normal vs. early AMD was 99.4%. CONCLUSION: Testing results showed that the developed framework is repeatable and effective as a potentially valuable tool in retinal imaging research.

Feasibility of the soft attention-based models for automatic segmentation of OCT kidney images.

Clinically, optical coherence tomography (OCT) has been utilized to obtain the images of the kidney's proximal convoluted tubules (PCTs), which can be used to quantify the morphometric parameters such as tubular density and diameter. Such parameters are useful for evaluating the status of the donor kidney for transplant. Quantifying PCTs from OCT images by human readers is a time-consuming and tedious process. Despite the fact that conventional deep learning models such as conventional neural networks (CNNs) have achieved great success in the automatic segmentation of kidney OCT images, gaps remain regarding the segmentation accuracy and reliability. Attention-based deep learning model has benefits over regular CNNs as it is intended to focus on the relevant part of the image and extract features for those regions. This paper aims at developing an Attention-based UNET model for automatic image analysis, pattern recognition, and segmentation of kidney OCT images. We evaluated five methods including the Residual-Attention-UNET, Attention-UNET, standard UNET, Residual UNET, and fully convolutional neural network using 14403 OCT images from 169 transplant kidneys for training and testing. Our results show that Residual-Attention-UNET outperformed the other four methods in segmentation by showing the highest values of all the six metrics including dice score (0.81 ± 0.01), intersection over union (IOU, 0.83 ± 0.02), specificity (0.84 ± 0.02), recall (0.82 ± 0.03), precision (0.81 ± 0.01), and accuracy (0.98 ± 0.08). Our results also show that the performance of the Residual-Attention-UNET is equivalent to the human manual segmentation (dice score = 0.84 ± 0.05). Residual-Attention-UNET and Attention-UNET also demonstrated good performance when trained on a small dataset (3456 images) whereas the performance of the other three methods dropped dramatically. In conclusion, our results suggested that the soft Attention-based models and specifically Residual-Attention-UNET are powerful and reliable methods for tubule lumen identification and segmentation and can help clinical evaluation of transplant kidney viability as fast and accurate as possible.