Optical coherence tomography (OCT) imaging is a well-known technology for visualizing retinal layers and helps ophthalmologists to detect possible diseases. Accurate and early diagnosis of common retinal diseases can prevent the patients from suffering critical damages to their vision. Computer-aided diagnosis (CAD) systems can significantly assist ophthalmologists in improving their examinations. This paper presents a new enhanced deep ensemble convolutional neural network for detecting retinal diseases from OCT images. Our model generates rich and multi-resolution features by employing the learning architectures of two robust convolutional models. Spatial resolution is a critical factor in medical images, especially the OCT images that contain tiny essential points. To empower our model, we apply a new post-architecture model to our ensemble model for enhancing spatial resolution learning without increasing computational costs. The introduced post-architecture model can be deployed to any feature extraction model to improve the utilization of the feature map's spatial values. We have collected two open-source datasets for our experiments to make our models capable of detecting six crucial retinal diseases: Age-related Macular Degeneration (AMD), Central Serous Retinopathy (CSR), Diabetic Retinopathy (DR), Choroidal Neovascularization (CNV), Diabetic Macular Edema (DME), and Drusen alongside the normal cases. Our experiments on two datasets and comparing our model with some other well-known deep convolutional neural networks have proven that our architecture can increase the classification accuracy up to 5%. We hope that our proposed methods create the next step of CAD systems development and help future researches. The code of this paper is shared at https://github.com/mr7495/OCT-classification.
OCTDL: Optical Coherence Tomography Dataset for Image-Based Deep Learning Methods
Friedrich-Alexander-Universität Erlangen-Nürnberg（弗里德里希-亚历山大-埃尔朗根-纽伦堡大学）；Ural Federal University Named after the First President of Russia B. N. Yeltsin（俄罗斯首任总统B.N.叶利钦命名的乌拉尔联邦大学）；Ophthalmosurgery Clinic "Professorskaya Plus"（“Professorskaya Plus”眼科诊所）；Ural State Medical University（乌拉尔国立医科大学）
Retinal Optical Coherence Tomography (OCT), a noninvasive cross-sectional scan of the eye with qualitative 3D visualization of the retinal anatomy is use to study the retinal structure and the presence of pathogens. The advent of the retinal OCT has transformed ophthalmology and it is currently paramount for the diagnosis, monitoring and treatment of many eye pathogens including Macular Edema which impairs vision severely or Glaucoma that can cause irreversible blindness. However the quality of retinal OCT images varies among device manufacturers. Deep Learning methods have had their success i…
Casey Eye Institute, Oregon Health & Science University（俄勒冈健康与科学大学凯西眼科研究所）；School of Physics and Optoelectronic Engineering, Foshan University（佛山大学物理与光电工程学院）；Department of Biomedical Engineering, Oregon Health & Science University（俄勒冈健康与科学大学生物医学工程系）
Purpose: We proposed a deep convolutional neural network (CNN), named Retinal Fluid Segmentation Network (ReF-Net) to segment volumetric retinal fluid on optical coherence tomography (OCT) volume. Methods: 3 x 3-mm OCT scans were acquired on one eye by a 70-kHz OCT commercial AngioVue system (RTVue-XR; Optovue, Inc.) from 51 participants in a clinical diabetic retinopathy (DR) study (45 with retinal edema and 6 healthy controls). A CNN with U-Net-like architecture was constructed to detect and segment the retinal fluid. Cross-sectional OCT and angiography (OCTA) scans were used for training an…
University of Oxford（牛津大学）；Big Data Institute, University of Oxford（牛津大学大数据研究所）；School of Engineering, Newcastle University（纽卡斯尔大学工程学院）；Neura Health Group；Newcastle Eye Centre, Royal Victoria Infirmary（纽卡斯尔皇家维多利亚医院纽卡斯尔眼科中心）；Newcastle University（纽卡斯尔大学）；Newcastle Upon Tyne, UK（泰恩河畔纽卡斯尔（英国））
Optical coherence tomography (OCT) is a commonly-used method of extracting high resolution retinal information. Moreover there is an increasing demand for the automated retinal layer segmentation which facilitates the retinal disease diagnosis. In this paper, we propose a novel multiprediction guided attention network (MPG-Net) for automated retinal layer segmentation in OCT images. The proposed method consists of two major steps to strengthen the discriminative power of a U-shape Fully convolutional network (FCN) for reliable automated segmentation. Firstly, the feature refinement module whic…
Khulna University of Engineering and Technology（库尔纳工程技术大学）
In medical science, the use of computer science in disease detection and diagnosis is gaining popularity. Previously, the detection of disease used to take a significant amount of time and was less reliable. Machine learning (ML) techniques employed in recent biomedical researches are making revolutionary changes by gaining higher accuracy with more concise timing. At present, it is even possible to automatically detect diseases from the scanned images with the help of ML. In this research, we have taken such an attempt to detect retinal diseases from optical coherence tomography (OCT) X-ray i…
OCTCube-M: A 3D multimodal optical coherence tomography foundation model for retinal and systemic diseases with cross-cohort and cross-device validation
Nanjing University of Science and Technology（南京理工大学）
Optical coherence tomography angiography (OCTA) is a novel imaging modality that has been widely utilized in ophthalmology and neuroscience studies to observe retinal vessels and microvascular systems. However, publicly available OCTA datasets remain scarce. In this paper, we introduce the largest and most comprehensive OCTA dataset dubbed OCTA-500, which contains OCTA imaging under two fields of view (FOVs) from 500 subjects. The dataset provides rich images and annotations including two modalities (OCT/OCTA volumes), six types of projections, four types of text labels (age / gender / eye / d…
The Pingry School（平格里学校）；Chinle Comprehensive Health Care Facility（钦利综合医疗中心）；University of Maryland, College Park（马里兰大学帕克分校）；NVIDIA（英伟达）
30 million Optical Coherence Tomography (OCT) imaging tests are issued annually to diagnose various retinal diseases, but accurate diagnosis of OCT scans requires trained eye care professionals who are still prone to making errors. With better systems for diagnosis, many cases of vision loss caused by retinal disease could be entirely avoided. In this work, we present ReLaX, a novel deep learning framework for explainable, accurate classification of retinal pathologies which achieves state-of-the-art accuracy. Furthermore, we emphasize producing both qualitative and quantitative explanations o…
In medical imaging, there are clinically relevant segmentation tasks where the output mask is a projection to a subset of input image dimensions. In this work, we propose a novel convolutional neural network architecture that can effectively learn to produce a lower-dimensional segmentation mask than the input image. The network restores encoded representation only in a subset of input spatial dimensions and keeps the representation unchanged in the others. The newly proposed projective skip-connections allow linking the encoder and decoder in a UNet-like structure. We evaluated the proposed m…
Cixi Institute of Biomedical Engineering, Ningbo Institute of Industrial Technology, Chinese Academy of Sciences（中国科学院宁波工业技术研究院慈溪生物医学工程研究所）；Inception Institute of Artificial Intelligence（起源人工智能研究院）；Keck School of Medicine, University of Southern California（南加州大学凯克医学院）；First Affiliated Hospital of Wenzhou Medical University（温州医科大学附属第一医院）；Southern University of Science and Technology（南方科技大学）；University of Liverpool（利物浦大学）
Optical Coherence Tomography Angiography (OCT-A) is a non-invasive imaging technique, and has been increasingly used to image the retinal vasculature at capillary level resolution. However, automated segmentation of retinal vessels in OCT-A has been under-studied due to various challenges such as low capillary visibility and high vessel complexity, despite its significance in understanding many eye-related diseases. In addition, there is no publicly available OCT-A dataset with manually graded vessels for training and validation. To address these issues, for the first time in the field of reti…
Optical coherence tomography (OCT) scanning is useful in detecting various retinal diseases. However, there are not enough ophthalmologists who can diagnose retinal OCT images in much of the world. To provide OCT screening inexpensively and extensively, an automated diagnosis system is indispensable. Although many machine learning techniques have been presented for assisting ophthalmologists in diagnosing retinal OCT images, there is no technique that can diagnose independently without relying on an ophthalmologist, i.e., there is no technique that does not overlook any anomaly, including unle…
University of Bern（伯尔尼大学）；University Hospital of Bern（伯尔尼大学医院）
Optical Coherence Tomography (OCT) is the primary imaging modality for detecting pathological biomarkers associated to retinal diseases such as Age-Related Macular Degeneration. In practice, clinical diagnosis and treatment strategies are closely linked to biomarkers visible in OCT volumes and the ability to identify these plays an important role in the development of ophthalmic pharmaceutical products. In this context, we present a method that automatically predicts the presence of biomarkers in OCT cross-sections by incorporating information from the entire volume. We do so by adding a bidir…
University of Isfahan（伊斯法罕大学）；Duke University（杜克大学）；Duke University Medical Center（杜克大学医学中心）
Optical coherence tomography (OCT) helps ophthalmologists assess macular edema, accumulation of fluids, and lesions at microscopic resolution. Quantification of retinal fluids is necessary for OCT-guided treatment management, which relies on a precise image segmentation step. As manual analysis of retinal fluids is a time-consuming, subjective, and error-prone task, there is increasing demand for fast and robust automatic solutions. In this study, a new convolutional neural architecture named RetiFluidNet is proposed for multi-class retinal fluid segmentation. The model benefits from hierarchi…
University of Nottingham（诺丁汉大学）；Shenzhen University（深圳大学）；Wuhan University of Technology（武汉理工大学）；University of Leicester（莱斯特大学）
In this paper, we propose a novel retinal layer boundary model for segmentation of optical coherence tomography (OCT) images. The retinal layer boundary model consists of 9 open parametric contours representing the 9 retinal layers in OCT images. An intensity-based Mumford-Shah (MS) variational functional is first defined to evolve the retinal layer boundary model to segment the 9 layers simultaneously. By making use of the normals of open parametric contours, we construct equal sized adjacent narrowbands that are divided by each contour. Regional information in each narrowband can thus be int…
Simultaneous column-based deep learning progression analysis of atrophy associated with AMD in longitudinal OCT studies
School of Computer Science and Engineering, The Hebrew University of Jerusalem（耶路撒冷希伯来大学计算机科学与工程学院）；The Alexander Grass Center for Bioengineering, The Hebrew University of Jerusalem（耶路撒冷希伯来大学亚历山大·格拉斯生物工程中心）；Hadassah Medical Center（哈达萨医疗中心）
Fundus-Enhanced Disease-Aware Distillation Model for Retinal Disease Classification from OCT Images
The Hong Kong University of Science and Technology（香港科技大学）；Guangdong Provincial Hospital of Integrated Traditional Chinese and Western Medicine（广东省中西医结合医院）；Guangdong Weiren Meditech Co., Ltd（广东唯仁医疗科技有限公司）
Predicting risk of cardiovascular disease using retinal OCT imaging
University of Leeds（利兹大学）；Research Institute for Signals, Systems and Computational Intelligence（信号、系统与计算智能研究所）；CONICET-UNL（阿根廷科学技术研究委员会-国立洛马大学）；University of Manchester（曼彻斯特大学）；Manchester University NHS Foundation Trust（曼彻斯特大学NHS基金会信托基金）；European Molecular Biology Laboratory（欧洲分子生物学实验室）；European Bioinformatics Institute (EMBL-EBI)（欧洲生物信息研究所）；NIHR Manchester Biomedical Research Centre（NIHR曼彻斯特生物医学研究中心）；Manchester Academic Health Science Centre（曼彻斯特学术健康科学中心）
提出基于 VAE 与随机森林的视网膜 OCT 自监督方法，结合临床数据预测心肌梗死或卒中风险，性能优于 QRISK3，并揭示脉络膜层为关键特征。
3D imaging modalities are becoming increasingly popular and relevant in retinal imaging owing to their effectiveness in highlighting structures in sub-retinal layers. OCT is one such modality which has great importance in the context of analysis of cystoid structures in subretinal layers. Signal to noise ratio(SNR) of the images obtained from OCT is less and hence automated and accurate determination of cystoid structures from OCT is a challenging task. We propose an automated method for detecting/segmenting cysts in 3D OCT volumes. The proposed method is biologically inspired and fast aided b…
Simultaneous Alignment and Surface Regression Using Hybrid 2D-3D Networks for 3D Coherent Layer Segmentation of Retinal OCT Images with Full and Sparse Annotations
Xiamen University（厦门大学）；National Institute for Data Science in Health and Medicine, Xiamen University（厦门大学健康医疗大数据国家研究院）；Tencent YouTu Lab（腾讯优图实验室）；Southern University of Science and Technology（南方科技大学）
Shahid Beheshti University（沙希德·贝赫什提大学）；Shahid Beheshti University of Medical Sciences（沙希德·贝赫什提医科大学）
Intra retinal fluids or Cysts are one of the important symptoms of macular pathologies that are efficiently visualized in OCT images. Automatic segmentation of these abnormalities has been widely investigated in medical image processing studies. In this paper, we propose a new U-Net-based approach for Intra retinal cyst segmentation across different vendors that improves some of the challenges faced by previous deep-based techniques. The proposed method has two main steps: 1- prior information embedding and input data adjustment, and 2- IRC segmentation model. In the first step, we inject the …
Early Alzheimer's Disease Detection from Retinal OCT Images: A UK Biobank Study
Department of Computer Engineering Isik University Istanbul, Turkey（计算机工程系伊斯肯大学）；Department of Artificial Intelligence and Data Engineering（人工智能与数据工程系）；Data Engineering Istanbul Technical University Istanbul, Turkey（数据工程系伊斯坦布尔技术大学）
Optical Coherence Tomography (OCT) is an emerging technique in the field of biomedical imaging, with applications in ophthalmology, dermatology, coronary imaging etc. Due to the underlying physics, OCT images usually suffer from a granular pattern, called speckle noise, which restricts the process of interpretation. Here, a sparse and low rank decomposition based method is used for speckle reduction in retinal OCT images. This technique works on input data that consists of several B-scans of the same location. The next step is the batch alignment of the images using a sparse and low-rank decom…
Optical coherence tomography (OCT) is a non-invasive 3D modality widely used in ophthalmology for imaging the retina. Achieving automated, anatomically coherent retinal layer segmentation on OCT is important for the detection and monitoring of different retinal diseases, like Age-related Macular Disease (AMD) or Diabetic Retinopathy. However, the majority of state-of-the-art layer segmentation methods are based on purely supervised deep-learning, requiring a large amount of pixel-level annotated data that is expensive and hard to obtain. With this in mind, we introduce a semi-supervised paradi…
University of Bern（伯尔尼大学）；RetinAI Medical GmbH（RetinAI Medical 公司）；Bern University Hospital（伯尔尼大学医院）
The automatic segmentation of retinal layer structures enables clinically-relevant quantification and monitoring of eye disorders over time in OCT imaging. Eyes with late-stage diseases are particularly challenging to segment, as their shape is highly warped due to pathological biomarkers. In this context, we propose a novel fully Convolutional Neural Network (CNN) architecture which combines dilated residual blocks in an asymmetric U-shape configuration, and can segment multiple layers of highly pathological eyes in one shot. We validate our approach on a dataset of late-stage AMD patients an…
Divyadrishti Imaging Laboratory, IIT Roorkee, Indian Institute of Technology Roorkee（IIT Roorkee 的 Divyadrishti 成像实验室，印度理工学院 Roorkee）
Image data set from a multi-spectral animal imaging system is used to address two issues: (a) registering the oscillation in optical coherence tomography (OCT) images due to mouse eye movement and (b) suppressing the shadow region under the thick vessels/structures. Several classical and AI-based algorithms in combination are tested for each task to see their compatibility with data from the combined animal imaging system. Hybridization of AI with optical flow followed by Homography transformation is shown to be working (correlation value>0.7) for registration. Resnet50 backbone is shown to be…
Comprehensive Evaluation of OCT-based Automated Segmentation of Retinal Layer, Fluid and Hyper-Reflective Foci: Impact on Clinical Assessment of Diabetic Retinopathy Severity
School of Engineering Science, Simon Fraser University（西蒙弗雷泽大学工程科学学院）；School of Medicine, Wake Forest University（威克森林大学医学院）；Sankara Nethralaya（萨卡拉眼科医院）；Department of Ophthalmology and Visual Sciences, The University of British Columbia（不列颠哥伦比亚大学眼科与视觉科学系）；School of Biomedical Engineering, The University of British Columbia（不列颠哥伦比亚大学生物医学工程学院）；Institute of Ophthalmology, University College London（伦敦大学学院眼科研究所）；Department of Medical Physics and Biomedical Engineering, University College London（伦敦大学学院医学物理与生物医学工程系）；Department of Computer Science, Memorial University of Newfoundland（新斯科舍纪念大学计算机科学系）
According to the World Health Organization, 285 million people worldwide live with visual impairment. The most commonly used imaging technique for diagnosis in ophthalmology is optical coherence tomography (OCT). However, analysis of retinal OCT requires trained ophthalmologists and time, making a comprehensive early diagnosis unlikely. A recent study established a diagnostic tool based on convolutional neural networks (CNN), which was trained on a large database of retinal OCT images. The performance of the tool in classifying retinal conditions was on par to that of trained medical experts. …
Medical University Vienna（维也纳医科大学）；University of Vienna（维也纳大学）；NVIDIA Corporation（英伟达公司）
Diagnosis and treatment guidance are aided by detecting relevant biomarkers in medical images. Although supervised deep learning can perform accurate segmentation of pathological areas, it is limited by requiring a-priori definitions of these regions, large-scale annotations, and a representative patient cohort in the training set. In contrast, anomaly detection is not limited to specific definitions of pathologies and allows for training on healthy samples without annotation. Anomalous regions can then serve as candidates for biomarker discovery. Knowledge about normal anatomical structure br…
Optical coherence tomography (OCT) is a prevalent non-invasive imaging method which provides high resolution volumetric visualization of retina. However, its inherent defect, the speckle noise, can seriously deteriorate the tissue visibility in OCT. Deep learning based approaches have been widely used for image restoration, but most of these require a noise-free reference image for supervision. In this study, we present a diffusion probabilistic model that is fully unsupervised to learn from noise instead of signal. A diffusion process is defined by adding a sequence of Gaussian noise to self-…
Optical Coherence Tomography (OCT) is an emerging technique in the field of biomedical imaging, with applications in ophthalmology, dermatology, coronary imaging etc. OCT images usually suffer from a granular pattern, called speckle noise, which restricts the process of interpretation. Therefore the need for speckle noise reduction techniques is of high importance. To the best of our knowledge, use of Independent Component Analysis (ICA) techniques has never been explored for speckle reduction of OCT images. Here, a comparative study of several ICA techniques (InfoMax, JADE, FastICA and SOBI) …
Medical University of Vienna（维也纳医科大学）；Centre for Eye Research Australia（澳大利亚眼科研究中心）；Royal Victorian Eye and Ear Hospital（皇家维多利亚眼耳医院）；The University of Melbourne（墨尔本大学）
Longitudinal imaging is capable of capturing the static ana\-to\-mi\-cal structures and the dynamic changes of the morphology resulting from aging or disease progression. Self-supervised learning allows to learn new representation from available large unlabelled data without any expert knowledge. We propose a deep learning self-supervised approach to model disease progression from longitudinal retinal optical coherence tomography (OCT). Our self-supervised model takes benefit from a generic time-related task, by learning to estimate the time interval between pairs of scans acquired from the sa…
BRAC University（BRAC大学）；Islamic University of Technology（伊斯兰技术大学）
In the world of medical diagnostics, the adoption of various deep learning techniques is quite common as well as effective, and its statement is equally true when it comes to implementing it into the retina Optical Coherence Tomography (OCT) sector, but (i)These techniques have the black box characteristics that prevent the medical professionals to completely trust the results generated from them (ii)Lack of precision of these methods restricts their implementation in clinical and complex cases (iii)The existing works and models on the OCT classification are substantially large and complicated…
Machine Learning Prediction of Cardiovascular Risk in Type 1 Diabetes Mellitus Using Radiomics Features from Multimodal Retinal Images
Universitat Politècnica de Catalunya (UPC)（加泰罗尼亚理工大学）；Institut Clínic d´Oftalmología (ICOF)（眼科临床研究所）；Hospital Clínic de Barcelona（巴塞罗那临床医院）；Intelligent Data Science and Artificial Intelligence (IDEAI-UPC) Research Center（智能数据科学与人工智能研究中心）；August Pi i Sunyer Biomedical Research Institute (IDIBAPS)（奥古斯特·皮伊·苏涅尔生物医学研究所）；School of Medicine, Universitat de Barcelona（巴塞罗那大学医学院）
Recent contrastive learning methods achieved state-of-the-art in low label regimes. However, the training requires large batch sizes and heavy augmentations to create multiple views of an image. With non-contrastive methods, the negatives are implicitly incorporated in the loss, allowing different images and modalities as pairs. Although the meta-information (i.e., age, sex) in medical imaging is abundant, the annotations are noisy and prone to class imbalance. In this work, we exploited already existing temporal information (different visits from a patient) in a longitudinal optical coherence…
Segmentation of Retinal Low-Cost Optical Coherence Tomography Images using Deep Learning
Institute of Medical Informatics, University of Lübeck（吕贝克大学医学信息学研究所）；University of Lübeck（吕贝克大学）；Graduate School for Computing in Medicine and Life Sciences, University of Lübeck（医学与生命科学计算研究生学院，吕贝克大学）；Medical Laser Center Lübeck（吕贝克医疗激光中心）；Department of Ophthalmology, University of Kiel（基尔大学眼科部门）；Institute of Biomedical Optics, University of Lübeck（吕贝克大学生物医学光学研究所）
Medical University of Vienna（维也纳医科大学）；Medical University Vienna（维也纳医科大学）
Optical coherence tomography (OCT) has become the most important imaging modality in ophthalmology. A substantial amount of research has recently been devoted to the development of machine learning (ML) models for the identification and quantification of pathological features in OCT images. Among the several sources of variability the ML models have to deal with, a major factor is the acquisition device, which can limit the ML model's generalizability. In this paper, we propose to reduce the image variability across different OCT devices (Spectralis and Cirrus) by using CycleGAN, an unsupervis…
Robust Detection of Retinal Neovascularization in Widefield Optical Coherence Tomography
Casey Eye Institute, Oregon Health & Science University（俄勒冈健康与科学大学凯西眼科研究所）；Department of Biomedical Engineering, Oregon Health & Science University（俄勒冈健康与科学大学生物医学工程系）；Department of Ophthalmology, Mackay Memorial Hospital（马偕纪念医院眼科）；Department of Ophthalmology, Aichi Medical University（爱知医科大学眼科）
University of Tehran（德黑兰大学）；Noor Ophthalmology Research Center, Noor Eye Hospital（努尔眼科研究中心，努尔眼科医院）；Henry Ford Health System（亨利·福特医疗系统）
Age-related macular degeneration (AMD) is the most common cause of blindness in developed countries, especially in people over 60 years of age. The workload of specialists and the healthcare system in this field has increased in recent years mainly due to the prevalence of population aging worldwide and the chronic nature of AMD. Recent developments in deep learning have provided a unique opportunity to develop fully automated diagnosis frameworks. Considering the presence of AMD-related retinal pathologies in varying sizes in OCT images, our objective was to propose a multi-scale convolutiona…
Friedrich-Alexander-Universität Erlangen-Nürnberg（埃尔朗根-纽伦堡大学）；Massachusetts Institute of Technology（麻省理工学院）
Optical coherence tomography (OCT) enables high-resolution and non-invasive 3D imaging of the human retina but is inherently impaired by speckle noise. This paper introduces a spatio-temporal denoising algorithm for OCT data on a B-scan level using a novel quantile sparse image (QuaSI) prior. To remove speckle noise while preserving image structures of diagnostic relevance, we implement our QuaSI prior via median filter regularization coupled with a Huber data fidelity model in a variational approach. For efficient energy minimization, we develop an alternating direction method of multipliers …
The identification and quantification of markers in medical images is critical for diagnosis, prognosis, and disease management. Supervised machine learning enables the detection and exploitation of findings that are known a priori after annotation of training examples by experts. However, supervision does not scale well, due to the amount of necessary training examples, and the limitation of the marker vocabulary to known entities. In this proof-of-concept study, we propose unsupervised identification of anomalies as candidates for markers in retinal Optical Coherence Tomography (OCT) imaging…
Bruch's membrane (BM) segmentation on optical coherence tomography (OCT) is a pivotal step for the diagnosis and follow-up of age-related macular degeneration (AMD), one of the leading causes of blindness in the developed world. Automated BM segmentation methods exist, but they usually do not account for the anatomical coherence of the results, neither provide feedback on the confidence of the prediction. These factors limit the applicability of these systems in real-world scenarios. With this in mind, we propose an end-to-end deep learning method for automated BM segmentation in AMD patients.…
This paper presents a novel automated system that segments six sub-retinal layers from optical coherence tomography (OCT) image stacks of healthy patients and patients with diabetic macular edema (DME). First, each image in the OCT stack is denoised using a Wiener deconvolution algorithm that estimates the additive speckle noise variance using a novel Fourier-domain based structural error. This denoising method enhances the image SNR by an average of 12dB. Next, the denoised images are subjected to an iterative multi-resolution high-pass filtering algorithm that detects seven sub-retinal surfa…
With the introduction of spectral-domain optical coherence tomography (SDOCT), much larger image datasets are routinely acquired compared to what was possible using the previous generation of time-domain OCT. Thus, there is a critical need for the development of 3D segmentation methods for processing these data. We present here a novel 3D automatic segmentation method for retinal OCT volume data. Briefly, to segment a boundary surface, two OCT volume datasets are obtained by using a 3D smoothing filter and a 3D differential filter. Their linear combination is then calculated to generate new vo…
University of Heidelberg（海德堡大学）；Heidelberg Engineering GmbH（海德堡工程有限公司）
With the introduction of spectral-domain optical coherence tomography (OCT), resulting in a significant increase in acquisition speed, the fast and accurate segmentation of 3-D OCT scans has become evermore important. This paper presents a novel probabilistic approach, that models the appearance of retinal layers as well as the global shape variations of layer boundaries. Given an OCT scan, the full posterior distribution over segmentations is approximately inferred using a variational method enabling efficient probabilistic inference in terms of computationally tractable model components: Seg…
Segmentation of retinal layers from Optical Coherence Tomography (OCT) volumes is a fundamental problem for any computer aided diagnostic algorithm development. This requires preprocessing steps such as denoising, region of interest extraction, flattening and edge detection all of which involve separate parameter tuning. In this paper, we explore deep learning techniques to automate all these steps and handle the presence/absence of pathologies. A model is proposed consisting of a combination of Convolutional Neural Network (CNN) and Long Short Term Memory (LSTM). The CNN is used to extract la…
Optical coherence tomography (OCT) is a prevalent imaging technique for retina. However, it is affected by multiplicative speckle noise that can degrade the visibility of essential anatomical structures, including blood vessels and tissue layers. Although averaging repeated B-scan frames can significantly improve the signal-to-noise-ratio (SNR), this requires longer acquisition time, which can introduce motion artifacts and cause discomfort to patients. In this study, we propose a learning-based method that exploits information from the single-frame noisy B-scan and a pseudo-modality that is c…
LUMOS: Universal Semi-Supervised OCT Retinal Layer Segmentation with Hierarchical Reliable Mutual Learning
Southern University of Science and Technology（南方科技大学）；Shenzhen Loop Area Institute（深圳河套学院）；Jiaxing Research Institute, Southern University of Science and Technology（南方科技大学嘉兴研究院）
