SimLVSeg: Simplifying Left Ventricular Segmentation in 2D+Time Echocardiograms with Self- and Weakly-Supervised Learning
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arXiv
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| Autori principali: | , , , , |
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| Natura: | Preprint |
| Pubblicazione: |
2023
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| _version_ | 1866911813731352576 |
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| author | Maani, Fadillah Ukaye, Asim Saadi, Nada Saeed, Numan Yaqub, Mohammad |
| author_facet | Maani, Fadillah Ukaye, Asim Saadi, Nada Saeed, Numan Yaqub, Mohammad |
| contents | Echocardiography has become an indispensable clinical imaging modality for general heart health assessment. From calculating biomarkers such as ejection fraction to the probability of a patient's heart failure, accurate segmentation of the heart structures allows doctors to assess the heart's condition and devise treatments with greater precision and accuracy. However, achieving accurate and reliable left ventricle segmentation is time-consuming and challenging due to different reasons. Hence, clinicians often rely on segmenting the left ventricular (LV) in two specific echocardiogram frames to make a diagnosis. This limited coverage in manual LV segmentation poses a challenge for developing automatic LV segmentation with high temporal consistency, as the resulting dataset is typically annotated sparsely. In response to this challenge, this work introduces SimLVSeg, a novel paradigm that enables video-based networks for consistent LV segmentation from sparsely annotated echocardiogram videos. SimLVSeg consists of self-supervised pre-training with temporal masking, followed by weakly supervised learning tailored for LV segmentation from sparse annotations. We demonstrate how SimLVSeg outperforms the state-of-the-art solutions by achieving a 93.32% (95%CI 93.21-93.43%) dice score on the largest 2D+time echocardiography dataset (EchoNet-Dynamic) while being more efficient. SimLVSeg is compatible with two types of video segmentation networks: 2D super image and 3D segmentation. To show the effectiveness of our approach, we provide extensive ablation studies, including pre-training settings and various deep learning backbones. We further conduct an out-of-distribution test to showcase SimLVSeg's generalizability on unseen distribution (CAMUS dataset). The code is publicly available at https://github.com/fadamsyah/SimLVSeg. |
| format | Preprint |
| id |
arxiv_https___arxiv_org_abs_2310_00454 |
| institution | arXiv |
| publishDate | 2023 |
| record_format | arxiv |
| spellingShingle | SimLVSeg: Simplifying Left Ventricular Segmentation in 2D+Time Echocardiograms with Self- and Weakly-Supervised Learning Maani, Fadillah Ukaye, Asim Saadi, Nada Saeed, Numan Yaqub, Mohammad Computer Vision and Pattern Recognition Echocardiography has become an indispensable clinical imaging modality for general heart health assessment. From calculating biomarkers such as ejection fraction to the probability of a patient's heart failure, accurate segmentation of the heart structures allows doctors to assess the heart's condition and devise treatments with greater precision and accuracy. However, achieving accurate and reliable left ventricle segmentation is time-consuming and challenging due to different reasons. Hence, clinicians often rely on segmenting the left ventricular (LV) in two specific echocardiogram frames to make a diagnosis. This limited coverage in manual LV segmentation poses a challenge for developing automatic LV segmentation with high temporal consistency, as the resulting dataset is typically annotated sparsely. In response to this challenge, this work introduces SimLVSeg, a novel paradigm that enables video-based networks for consistent LV segmentation from sparsely annotated echocardiogram videos. SimLVSeg consists of self-supervised pre-training with temporal masking, followed by weakly supervised learning tailored for LV segmentation from sparse annotations. We demonstrate how SimLVSeg outperforms the state-of-the-art solutions by achieving a 93.32% (95%CI 93.21-93.43%) dice score on the largest 2D+time echocardiography dataset (EchoNet-Dynamic) while being more efficient. SimLVSeg is compatible with two types of video segmentation networks: 2D super image and 3D segmentation. To show the effectiveness of our approach, we provide extensive ablation studies, including pre-training settings and various deep learning backbones. We further conduct an out-of-distribution test to showcase SimLVSeg's generalizability on unseen distribution (CAMUS dataset). The code is publicly available at https://github.com/fadamsyah/SimLVSeg. |
| title | SimLVSeg: Simplifying Left Ventricular Segmentation in 2D+Time Echocardiograms with Self- and Weakly-Supervised Learning |
| topic | Computer Vision and Pattern Recognition |
| url | https://arxiv.org/abs/2310.00454 |