Adversarial-based latent space alignment network for left atrial appendage segmentation in transesophageal echocardiography images.

Left atrial appendage (LAA) is a leading cause of atrial fibrillation and thrombosis in cardiovascular disease. Clinicians can rely on LAA occlusion (LAAO) to effectively prevent and treat ischaemic strokes attributed to the LAA. The correct selection of the LAAO is one of the most critical stages in the successful surgical process, which relies on the quantification of the anatomical structure of the LAA for successful intervention in LAAO. In this paper, we propose an adversarial-based latent space alignment framework for LAA segmentation in transesophageal echocardiography (TEE) images by introducing prior knowledge from the label. The proposed method consists of an LAA segmentation network, a label reconstruction network, and a latent space alignment loss. To be specific, we first employ ConvNeXt as the backbone of the segmentation and reconstruction network to enhance the feature extraction capability of the encoder. The label reconstruction network then encodes the prior shape features from the LAA labels to the latent space. The latent space alignment loss consists of the adversarial-based alignment and the contrast learning losses. It can motivate the segmentation network to learn the prior shape features of the labels, thus improving the accuracy of LAA edge segmentation. The proposed method was evaluated on a TEE dataset including 1,783 images and the experimental results showed that the proposed method outperformed other state-of-the-art LAA segmentation methods with Dice coefficient, AUC, ACC, G-mean, and Kappa of 0.831, 0.917, 0.989, 0.911, and 0.825, respectively.

Choroidal layer segmentation in OCT images by a boundary enhancement network.

Morphological changes of the choroid have been proved to be associated with the occurrence and pathological mechanism of many ophthalmic diseases. Optical Coherence Tomography (OCT) is a non-invasive technique for imaging of ocular biological tissues, that can reveal the structure of the retinal and choroidal layers in micron-scale resolution. However, unlike the retinal layer, the interface between the choroidal layer and the sclera is ambiguous in OCT, which makes it difficult for ophthalmologists to identify with certainty. In this paper, we propose a novel boundary-enhanced encoder-decoder architecture for choroid segmentation in retinal OCT images, in which a Boundary Enhancement Module (BEM) forms the backbone of each encoder-decoder layer. The BEM consists of three parallel branches: 1) a Feature Extraction Branch (FEB) to obtain feature maps with different receptive fields; 2) a Channel Enhancement Branch (CEB) to extract the boundary information of different channels; and 3) a Boundary Activation Branch (BAB) to enhance the boundary information via a novel activation function. In addition, in order to incorporate expert knowledge into the segmentation network, soft key point maps are generated on the choroidal boundary, and are combined with the predicted images to facilitate precise choroidal boundary segmentation. In order to validate the effectiveness and superiority of the proposed method, both qualitative and quantitative evaluations are employed on three retinal OCT datasets for choroid segmentation. The experimental results demonstrate that the proposed method yields better choroid segmentation performance than other deep learning approaches. Moreover, both 2D and 3D features are extracted for statistical analysis from normal and highly myopic subjects based on the choroid segmentation results, which is helpful in revealing the pathology of high myopia. Code is available at https://github.com/iMED-Lab/Choroid-segmentation.

Sparse-Based Domain Adaptation Network for OCTA Image Super-Resolution Reconstruction.

Retinal Optical Coherence Tomography Angiography (OCTA) with high-resolution is important for the quantification and analysis of retinal vasculature. However, the resolution of OCTA images is inversely proportional to the field of view at the same sampling frequency, which is not conducive to clinicians for analyzing larger vascular areas. In this paper, we propose a novel Sparse-based domain Adaptation Super-Resolution network (SASR) for the reconstruction of realistic [Formula: see text]/low-resolution (LR) OCTA images to high-resolution (HR) representations. To be more specific, we first perform a simple degradation of the [Formula: see text]/high-resolution (HR) image to obtain the synthetic LR image. An efficient registration method is then employed to register the synthetic LR with its corresponding [Formula: see text] image region within the [Formula: see text] image to obtain the cropped realistic LR image. We then propose a multi-level super-resolution model for the fully-supervised reconstruction of the synthetic data, guiding the reconstruction of the realistic LR images through a generative-adversarial strategy that allows the synthetic and realistic LR images to be unified in the feature domain. Finally, a novel sparse edge-aware loss is designed to dynamically optimize the vessel edge structure. Extensive experiments on two OCTA sets have shown that our method performs better than state-of-the-art super-resolution reconstruction methods. In addition, we have investigated the performance of the reconstruction results on retina structure segmentations, which further validate the effectiveness of our approach.

Hybrid Variation-Aware Network for Angle-Closure Assessment in AS-OCT.

Automatic angle-closure assessment in Anterior Segment OCT (AS-OCT) images is an important task for the screening and diagnosis of glaucoma, and the most recent computer-aided models focus on a binary classification of anterior chamber angles (ACA) in AS-OCT, i.e., open-angle and angle-closure. In order to assist clinicians who seek better to understand the development of the spectrum of glaucoma types, a more discriminating three-class classification scheme was suggested, i.e., the classification of ACA was expended to include open-, appositional- and synechial angles. However, appositional and synechial angles display similar appearances in an AS-OCT image, which makes classification models struggle to differentiate angle-closure subtypes based on static AS-OCT images. In order to tackle this issue, we propose a 2D-3D Hybrid Variation-aware Network (HV-Net) for open-appositional-synechial ACA classification from AS-OCT imagery. Specifically, taking into account clinical priors, we first reconstruct the 3D iris surface from an AS-OCT sequence, and obtain the geometrical characteristics necessary to provide global shape information. 2D AS-OCT slices and 3D iris representations are then fed into our HV-Net to extract cross-sectional appearance features and iris morphological features, respectively. To achieve similar results to those of dynamic gonioscopy examination, which is the current gold standard for diagnostic angle assessment, the paired AS-OCT images acquired in dark and light illumination conditions are used to obtain an accurate characterization of configurational changes in ACAs and iris shapes, using a Variation-aware Block. In addition, an annealing loss function was introduced to optimize our model, so as to encourage the sub-networks to map the inputs into the more conducive spaces to extract dark-to-light variation representations, while retaining the discriminative power of the learned features. The proposed model is evaluated across 1584 paired AS-OCT samples, and it has demonstrated its superiority in classifying open-, appositional- and synechial angles.

Angle-closure assessment in anterior segment OCT images via deep learning.

Precise characterization and analysis of anterior chamber angle (ACA) are of great importance in facilitating clinical examination and diagnosis of angle-closure disease. Currently, the gold standard for diagnostic angle assessment is observation of ACA by gonioscopy. However, gonioscopy requires direct contact between the gonioscope and patients' eye, which is uncomfortable for patients and may deform the ACA, leading to false results. To this end, in this paper, we explore a potential way for grading ACAs into open-, appositional- and synechial angles by Anterior Segment Optical Coherence Tomography (AS-OCT), rather than the conventional gonioscopic examination. The proposed classification schema can be beneficial to clinicians who seek to better understand the progression of the spectrum of angle-closure disease types, so as to further assist the assessment and required treatment at different stages of angle-closure disease. To be more specific, we first use an image alignment method to generate sequences of AS-OCT images. The ACA region is then localized automatically by segmenting an important biomarker - the iris - as this is a primary structural cue in identifying angle-closure disease. Finally, the AS-OCT images acquired in both dark and bright illumination conditions are fed into our Multi-Sequence Deep Network (MSDN) architecture, in which a convolutional neural network (CNN) module is applied to extract feature representations, and a novel ConvLSTM-TC module is employed to study the spatial state of these representations. In addition, a novel time-weighted cross-entropy loss (TC) is proposed to optimize the output of the ConvLSTM, and the extracted features are further aggregated for the purposes of classification. The proposed method is evaluated across 66 eyes, which include 1584 AS-OCT sequences, and a total of 16,896 images. The experimental results show that the proposed method outperforms existing state-of-the-art methods in applicability, effectiveness, and accuracy.

ROSE: A Retinal OCT-Angiography Vessel Segmentation Dataset and New Model.

Optical Coherence Tomography Angiography (OCTA) is a non-invasive imaging technique that has been increasingly used to image the retinal vasculature at capillary level resolution. However, automated segmentation of retinal vessels in OCTA has been under-studied due to various challenges such as low capillary visibility and high vessel complexity, despite its significance in understanding many vision-related diseases. In addition, there is no publicly available OCTA dataset with manually graded vessels for training and validation of segmentation algorithms. To address these issues, for the first time in the field of retinal image analysis we construct a dedicated Retinal OCTA SEgmentation dataset (ROSE), which consists of 229 OCTA images with vessel annotations at either centerline-level or pixel level. This dataset with the source code has been released for public access to assist researchers in the community in undertaking research in related topics. Secondly, we introduce a novel split-based coarse-to-fine vessel segmentation network for OCTA images (OCTA-Net), with the ability to detect thick and thin vessels separately. In the OCTA-Net, a split-based coarse segmentation module is first utilized to produce a preliminary confidence map of vessels, and a split-based refined segmentation module is then used to optimize the shape/contour of the retinal microvasculature. We perform a thorough evaluation of the state-of-the-art vessel segmentation models and our OCTA-Net on the constructed ROSE dataset. The experimental results demonstrate that our OCTA-Net yields better vessel segmentation performance in OCTA than both traditional and other deep learning methods. In addition, we provide a fractal dimension analysis on the segmented microvasculature, and the statistical analysis demonstrates significant differences between the healthy control and Alzheimer's Disease group. This consolidates that the analysis of retinal microvasculature may offer a new scheme to study various neurodegenerative diseases.

Automatic Sequence-Based Network for Lung Diseases Detection in Chest CT.

OBJECTIVE: To develop an accurate and rapid computed tomography (CT)-based interpretable AI system for the diagnosis of lung diseases. BACKGROUND: Most existing AI systems only focus on viral pneumonia (e.g., COVID-19), specifically, ignoring other similar lung diseases: e.g., bacterial pneumonia (BP), which should also be detected during CT screening. In this paper, we propose a unified sequence-based pneumonia classification network, called SLP-Net, which utilizes consecutiveness information for the differential diagnosis of viral pneumonia (VP), BP, and normal control cases from chest CT volumes. METHODS: Considering consecutive images of a CT volume as a time sequence input, compared with previous 2D slice-based or 3D volume-based methods, our SLP-Net can effectively use the spatial information and does not need a large amount of training data to avoid overfitting. Specifically, sequential convolutional neural networks (CNNs) with multi-scale receptive fields are first utilized to extract a set of higher-level representations, which are then fed into a convolutional long short-term memory (ConvLSTM) module to construct axial dimensional feature maps. A novel adaptive-weighted cross-entropy loss (ACE) is introduced to optimize the output of the SLP-Net with a view to ensuring that as many valid features from the previous images as possible are encoded into the later CT image. In addition, we employ sequence attention maps for auxiliary classification to enhance the confidence level of the results and produce a case-level prediction. RESULTS: For evaluation, we constructed a dataset of 258 chest CT volumes with 153 VP, 42 BP, and 63 normal control cases, for a total of 43,421 slices. We implemented a comprehensive comparison between our SLP-Net and several state-of-the-art methods across the dataset. Our proposed method obtained significant performance without a large amount of data, outperformed other slice-based and volume-based approaches. The superior evaluation performance achieved in the classification experiments demonstrated the ability of our model in the differential diagnosis of VP, BP and normal cases.

Multi-scale U-net with Edge Guidance for Multimodal Retinal Image Deformable Registration.

Registration of multimodal retinal images is of great importance in facilitating the diagnosis and treatment of many eye diseases, such as the registration between color fundus images and optical coherence tomography (OCT) images. However, it is difficult to obtain ground truth, and most existing algorithms are for rigid registration without considering the optical distortion. In this paper, we present an unsupervised learning method for deformable registration between the two images. To solve the registration problem, the structure achieves a multi-level receptive field and takes contour and local detail into account. To measure the edge difference caused by different distortions in the optics center and edge, an edge similarity (ES) loss term is proposed, so loss function is composed by local cross-correlation, edge similarity and diffusion regularizer on the spatial gradients of the deformation matrix. Thus, we propose a multi-scale input layer, U-net with dilated convolution structure, squeeze excitation (SE) block and spatial transformer layers. Quantitative experiments prove the proposed framework is best compared with several conventional and deep learningbased methods, and our ES loss and structure combined with Unet and multi-scale layers achieve competitive results for normal and abnormal images.

AGE challenge: Angle Closure Glaucoma Evaluation in Anterior Segment Optical Coherence Tomography.

Angle closure glaucoma (ACG) is a more aggressive disease than open-angle glaucoma, where the abnormal anatomical structures of the anterior chamber angle (ACA) may cause an elevated intraocular pressure and gradually lead to glaucomatous optic neuropathy and eventually to visual impairment and blindness. Anterior Segment Optical Coherence Tomography (AS-OCT) imaging provides a fast and contactless way to discriminate angle closure from open angle. Although many medical image analysis algorithms have been developed for glaucoma diagnosis, only a few studies have focused on AS-OCT imaging. In particular, there is no public AS-OCT dataset available for evaluating the existing methods in a uniform way, which limits progress in the development of automated techniques for angle closure detection and assessment. To address this, we organized the Angle closure Glaucoma Evaluation challenge (AGE), held in conjunction with MICCAI 2019. The AGE challenge consisted of two tasks: scleral spur localization and angle closure classification. For this challenge, we released a large dataset of 4800 annotated AS-OCT images from 199 patients, and also proposed an evaluation framework to benchmark and compare different models. During the AGE challenge, over 200 teams registered online, and more than 1100 results were submitted for online evaluation. Finally, eight teams participated in the onsite challenge. In this paper, we summarize these eight onsite challenge methods and analyze their corresponding results for the two tasks. We further discuss limitations and future directions. In the AGE challenge, the top-performing approach had an average Euclidean Distance of 10 pixels (10 µm) in scleral spur localization, while in the task of angle closure classification, all the algorithms achieved satisfactory performances, with two best obtaining an accuracy rate of 100%. These artificial intelligence techniques have the potential to promote new developments in AS-OCT image analysis and image-based angle closure glaucoma assessment in particular.

Automated Iris Segmentation from Anterior Segment OCT Images with Occludable Angles via Local Phase Tensor.

Morphological changes in the iris are one of the major causes of angle-closure glaucoma, and an anteriorly-bowed iris may be further associated with greater risk of disease progression from primary angle-closure suspect (PACS) to chronic primary angle-closure glaucoma (CPCAG). In consequence, the automated detection of abnormalities in the iris region is of great importance in the management of glaucoma. In this paper, we present a new method for the extraction of the iris region by using a local phase tensor-based curvilinear structure enhancement method, and apply it to anterior segment optical coherence tomography (AS-OCT) imagery in the presence of occludable iridocorneal angle. The proposed method is evaluated across a dataset of 200 anterior chamber angle (ACA) images, and the experimental results show that the proposed method outperforms existing state-of-the-art method in applicability, effectiveness, and accuracy.

Anterior Chamber Angles Classification in Anterior Segment OCT Images via Multi-Scale Regions Convolutional Neural Networks.

Angle-closure glaucoma is one of the major causes of blindness in Asia. In this paper, we present a new approach for the classification of the anterior chamber angles into open, narrowed, and closure, in anterior segment optical coherence tomography (AS-OCT), by learning the manual annotations from gonioscopy, so as to further assist the assessment of angle-closure glaucoma. The proposed framework firstly localizes the anterior chamber angle region automatically, which is the primary structural image cue for clinically identifying glaucoma. Then three scales of cropped chamber angle images are fed into our Multi-Scale Regions Convolutional Neural Networks (MSRCNN) architecture, in which three parallel convolutional neural networks are applied to extract feature representations. Finally, the representations are stacked to fully-connected layer for glaucoma type classification. The proposed method is evaluated across a dataset of 9728 anterior chamber angle images, and the experimental results show that the proposed method outperforms existing state-of-the-art methods in applicability, effectiveness, and accuracy.

CE-Net: Context Encoder Network for 2D Medical Image Segmentation.

Medical image segmentation is an important step in medical image analysis. With the rapid development of a convolutional neural network in image processing, deep learning has been used for medical image segmentation, such as optic disc segmentation, blood vessel detection, lung segmentation, cell segmentation, and so on. Previously, U-net based approaches have been proposed. However, the consecutive pooling and strided convolutional operations led to the loss of some spatial information. In this paper, we propose a context encoder network (CE-Net) to capture more high-level information and preserve spatial information for 2D medical image segmentation. CE-Net mainly contains three major components: a feature encoder module, a context extractor, and a feature decoder module. We use the pretrained ResNet block as the fixed feature extractor. The context extractor module is formed by a newly proposed dense atrous convolution block and a residual multi-kernel pooling block. We applied the proposed CE-Net to different 2D medical image segmentation tasks. Comprehensive results show that the proposed method outperforms the original U-Net method and other state-of-the-art methods for optic disc segmentation, vessel detection, lung segmentation, cell contour segmentation, and retinal optical coherence tomography layer segmentation.