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Register a new userSVS-net: A Novel Semantic Segmentation Network in Optical Coherence Tomography Angiography Images
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Automated vascular segmentation on optical coherence tomography angiography (OCTA) is important for the quantitative analyses of retinal microvasculature in neuroretinal and systemic diseases. Despite recent improvements, artifacts continue to pose challenges in segmentation. Our study focused on removing the speckle noise artifact from OCTA images when performing segmentation. Speckle noise is common in OCTA and is particularly prominent over large non-perfusion areas. It may interfere with the proper assessment of retinal vasculature. In this study, we proposed a novel Supervision Vessel Segmentation network (SVS-net) to detect vessels of different sizes. The SVS-net includes a new attention-based module to describe vessel positions and facilitate the understanding of the network learning process. The model is efficient and explainable and could be utilized to reduce the need for manual labeling. Our SVS-net had better performance in accuracy, recall, F1 score, and Kappa score when compared to other well recognized models.
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Optical coherence tomography angiography (OCTA) performs non-invasive visualization and characterization of microvasculature in research and clinical applications mainly in ophthalmology and dermatology. A wide variety of instruments, imaging protocols, processing methods and metrics have been used to describe the microvasculature, such that comparing different study outcomes is currently not feasible. With the goal of contributing to standardization of OCTA data analysis, we report a user-friendly, open-source toolbox, OCTAVA (OCTA Vascular Analyzer), to automate the pre-processing, segmentation, and quantitative analysis of en face OCTA maximum intensity projection images in a standardized workflow. We present each analysis step, including optimization of filtering and choice of segmentation algorithm, and definition of metrics. We perform quantitative analysis of OCTA images from different commercial and non-commercial instruments and samples and show OCTAVA can accurately and reproducibly determine metrics for characterization of microvasculature. Wide adoption could enable studies and aggregation of data on a scale sufficient to develop reliable microvascular biomarkers for early detection, and to guide treatment, of microvascular disease.
The presence of drusen is the main hallmark of early/intermediate age-related macular degeneration (AMD). Therefore, automated drusen segmentation is an important step in image-guided management of AMD. There are two common approaches to drusen segmentation. In the first, the drusen are segmented directly as a binary classification task. In the second approach, the surrounding retinal layers (outer boundary retinal pigment epithelium (OBRPE) and Bruchs membrane (BM)) are segmented and the remaining space between these two layers is extracted as drusen. In this work, we extend the standard U-Net architecture with spatial pyramid pooling components to introduce global feature context. We apply the model to the task of segmenting drusen together with BM and OBRPE. The proposed network was trained and evaluated on a longitudinal OCT dataset of 425 scans from 38 patients with early/intermediate AMD. This preliminary study showed that the proposed network consistently outperformed the standard U-net model.
This study is to demonstrate deep learning for automated artery-vein (AV) classification in optical coherence tomography angiography (OCTA). The AV-Net, a fully convolutional network (FCN) based on modified U-shaped CNN architecture, incorporates enface OCT and OCTA to differentiate arteries and veins. For the multi-modal training process, the enface OCT works as a near infrared fundus image to provide vessel intensity profiles, and the OCTA contains blood flow strength and vessel geometry features. A transfer learning process is also integrated to compensate for the limitation of available dataset size of OCTA, which is a relatively new imaging modality. By providing an average accuracy of 86.75%, the AV-Net promises a fully automated platform to foster clinical deployment of differential AV analysis in OCTA.
Semantic segmentation of remotely sensed images plays an important role in land resource management, yield estimation, and economic assessment. U-Net, a deep encoder-decoder architecture, has been used frequently for image segmentation with high accuracy. In this Letter, we incorporate multi-scale features generated by different layers of U-Net and design a multi-scale skip connected and asymmetric-convolution-based U-Net (MACU-Net), for segmentation using fine-resolution remotely sensed images. Our design has the following advantages: (1) The multi-scale skip connections combine and realign semantic features contained in both low-level and high-level feature maps; (2) the asymmetric convolution block strengthens the feature representation and feature extraction capability of a standard convolution layer. Experiments conducted on two remotely sensed datasets captured by different satellite sensors demonstrate that the proposed MACU-Net transcends the U-Net, U-NetPPL, U-Net 3+, amongst other benchmark approaches. Code is available at https://github.com/lironui/MACU-Net.
Sea-land segmentation is an important process for many key applications in remote sensing. Proper operative sea-land segmentation for remote sensing images remains a challenging issue due to complex and diverse transition between sea and lands. Although several Convolutional Neural Networks (CNNs) have been developed for sea-land segmentation, the performance of these CNNs is far from the expected target. This paper presents a novel deep neural network structure for pixel-wise sea-land segmentation, a Residual Dense U-Net (RDU-Net), in complex and high-density remote sensing images. RDU-Net is a combination of both down-sampling and up-sampling paths to achieve satisfactory results. In each down- and up-sampling path, in addition to the convolution layers, several densely connected residual network blocks are proposed to systematically aggregate multi-scale contextual information. Each dense network block contains multilevel convolution layers, short-range connections and an identity mapping connection which facilitates features re-use in the network and makes full use of the hierarchical features from the original images. These proposed blocks have a certain number of connections that are designed with shorter distance backpropagation between the layers and can significantly improve segmentation results whilst minimizing computational costs. We have performed extensive experiments on two real datasets Google Earth and ISPRS and compare the proposed RDUNet against several variations of Dense Networks. The experimental results show that RDUNet outperforms the other state-of-the-art approaches on the sea-land segmentation tasks.
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