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Kulathilake CD, Udupihille J, Abeysundara SP, Senoo A. Deep learning-driven multi-class classification of brain strokes using computed tomography: A step towards enhanced diagnostic precision. Eur J Radiol 2025; 187:112109. [PMID: 40252282 DOI: 10.1016/j.ejrad.2025.112109] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/17/2025] [Revised: 04/08/2025] [Accepted: 04/09/2025] [Indexed: 04/21/2025]
Abstract
OBJECTIVE To develop and validate deep learning models leveraging CT imaging for the prediction and classification of brain stroke conditions, with the potential to enhance accuracy and support clinical decision-making. MATERIALS AND METHODS This retrospective, bi-center study included data from 250 patients, with a dataset of 8186 CT images collected from 2017 to 2022. Two AI models were developed using the Expanded ResNet101 deep learning framework as a two-step model. Model performance was evaluated using confusion matrices, supplemented by external validation with an independent dataset. External validation was conducted by an expert and two external members. Overall accuracy, confidence intervals, Cohen's Kappa value, and McNemar's test P-values were calculated. RESULTS A total of 8186 CT images were incorporated, with 6386 images used for the training and 900 datasets for testing and validation in Model 01. Further, 1619 CT images were used for training and 600 datasets for testing and validation in Model 02. The average accuracy, precision, and F1 score for both models were assessed: Model 01 achieved 99.6 %, 99.4 %, and 99.6 % respectively, whereas Model 02 achieved 99.2 %, 98.8 %, and 99.1 %. The external validation accuracies were 78.6 % (95 % CI: 0.73,0.83; P < 0.001) and 60.2 % (95 % CI: 0.48,0.70; P < 0.001) for Models 01 and 02 respectively, as evaluated by the expert. CONCLUSION Deep learning models demonstrated high accuracy, precision, and F1 scores in predicting outcomes for brain stroke patients. With larger cohort and diverse radiologic mimics, these models could support clinicians in prognosis and decision-making.
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Affiliation(s)
- Chathura D Kulathilake
- Department of Radiological Sciences, School of Human Health Sciences, Tokyo Metropolitan University, Japan
| | - Jeevani Udupihille
- Department of Radiology, Faculty of Medicine, University of Peradeniya, Sri Lanka
| | - Sachith P Abeysundara
- Department of Statistics and Computer Science, Faculty of Science, University of Peradeniya, Sri Lanka
| | - Atsushi Senoo
- Department of Radiological Sciences, School of Human Health Sciences, Tokyo Metropolitan University, Japan.
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2
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Qin J, Li Y, Qin G. MF-ResUnet: A 3D Liver Image Segmentation Method Based on Multi-Scale Feature Fusion. Int J Med Robot 2025; 21:e70068. [PMID: 40397360 DOI: 10.1002/rcs.70068] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/25/2024] [Revised: 04/10/2025] [Accepted: 04/24/2025] [Indexed: 05/22/2025]
Abstract
BACKGROUND Due to the variable shapes of the liver parenchyma, minimal voxel intensity differences with adjacent organs, and discontinuous liver boundaries, automatic liver segmentation from computerised tomography images poses significant challenges. METHODS In this study, we propose a 3D liver segmentation method based on multiscale feature fusion. This network employs SE channel attention to recalibrate liver features. Additionally, it utilises an AMF module for multiscale feature fusion to obtain rich spatial information. Furthermore, we introduce the NGAB module to address the deteriorating effects of dilated convolutions as the dilation rate increases, contributing to enhanced feature representation and improving accuracy in liver segmentation. RESULTS Experimental results on the publicly available LiTS2017 dataset and 3DIRCADb dataset show that our proposed framework achieves a DSC of 0.977 and 0.967 in liver segmentation, respectively. CONCLUSIONS The proposed method can adequately capture multiscale characteristics, showing promising prospects for automatic liver segmentation.
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Affiliation(s)
- Jun Qin
- College of Computer Science and Technology, Changchun University of Science and Technology, Changchun, China
| | - Yang Li
- College of Computer Science and Technology, Changchun University of Science and Technology, Changchun, China
| | - Guihe Qin
- College of Computer Science and Technology, Jilin University, Changchun, China
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3
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Wang L, Fatemi M, Alizad A. Artificial intelligence techniques in liver cancer. Front Oncol 2024; 14:1415859. [PMID: 39290245 PMCID: PMC11405163 DOI: 10.3389/fonc.2024.1415859] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/11/2024] [Accepted: 08/15/2024] [Indexed: 09/19/2024] Open
Abstract
Hepatocellular Carcinoma (HCC), the most common primary liver cancer, is a significant contributor to worldwide cancer-related deaths. Various medical imaging techniques, including computed tomography, magnetic resonance imaging, and ultrasound, play a crucial role in accurately evaluating HCC and formulating effective treatment plans. Artificial Intelligence (AI) technologies have demonstrated potential in supporting physicians by providing more accurate and consistent medical diagnoses. Recent advancements have led to the development of AI-based multi-modal prediction systems. These systems integrate medical imaging with other modalities, such as electronic health record reports and clinical parameters, to enhance the accuracy of predicting biological characteristics and prognosis, including those associated with HCC. These multi-modal prediction systems pave the way for predicting the response to transarterial chemoembolization and microvascular invasion treatments and can assist clinicians in identifying the optimal patients with HCC who could benefit from interventional therapy. This paper provides an overview of the latest AI-based medical imaging models developed for diagnosing and predicting HCC. It also explores the challenges and potential future directions related to the clinical application of AI techniques.
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Affiliation(s)
- Lulu Wang
- Department of Engineering, School of Technology, Reykjavık University, Reykjavík, Iceland
- Department of Physiology and Biomedical Engineering, Mayo Clinic College of Medicine and Science, Rochester, MN, United States
| | - Mostafa Fatemi
- Department of Physiology and Biomedical Engineering, Mayo Clinic College of Medicine and Science, Rochester, MN, United States
| | - Azra Alizad
- Department of Radiology, Mayo Clinic College of Medicine and Science, Rochester, MN, United States
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4
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Fallahpoor M, Nguyen D, Montahaei E, Hosseini A, Nikbakhtian S, Naseri M, Salahshour F, Farzanefar S, Abbasi M. Segmentation of liver and liver lesions using deep learning. Phys Eng Sci Med 2024; 47:611-619. [PMID: 38381270 DOI: 10.1007/s13246-024-01390-4] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/13/2022] [Accepted: 01/10/2024] [Indexed: 02/22/2024]
Abstract
Segmentation of organs and lesions could be employed for the express purpose of dosimetry in nuclear medicine, assisted image interpretations, and mass image processing studies. Deep leaning created liver and liver lesion segmentation on clinical 3D MRI data has not been fully addressed in previous experiments. To this end, the required data were collected from 128 patients, including their T1w and T2w MRI images, and ground truth labels of the liver and liver lesions were generated. The collection of 110 T1w-T2w MRI image sets was divided, with 94 designated for training and 16 for validation. Furthermore, 18 more datasets were separately allocated for use as hold-out test datasets. The T1w and T2w MRI images were preprocessed into a two-channel format so that they were used as inputs to the deep learning model based on the Isensee 2017 network. To calculate the final Dice coefficient of the network performance on test datasets, the binary average of T1w and T2w predicted images was used. The deep learning model could segment all 18 test cases, with an average Dice coefficient of 88% for the liver and 53% for the liver tumor. Liver segmentation was carried out with rather a high accuracy; this could be achieved for liver dosimetry during systemic or selective radiation therapies as well as for attenuation correction in PET/MRI scanners. Nevertheless, the delineation of liver lesions was not optimal; therefore, tumor detection was not practical by the proposed method on clinical data.
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Affiliation(s)
- Maryam Fallahpoor
- Department of Nuclear Medicine, Vali-Asr Hospital, Tehran University of Medical Sciences, 1419731351, Tehran, Iran
| | - Dan Nguyen
- Medical Artificial Intelligence and Automation (MAIA) Laboratory, Department of Radiation Oncology, University of Texas Southwestern Medical Center, 75390, Dallas, TX, USA
| | - Ehsan Montahaei
- Department of Computer Engineering, Sharif University of Technology, Tehran, Iran
| | - Ali Hosseini
- Department of Nuclear Medicine, Vali-Asr Hospital, Tehran University of Medical Sciences, 1419731351, Tehran, Iran
| | - Shahram Nikbakhtian
- Departmemt of Artificial Intelligence and machine learning, Human Digital Healthcare, London, UK
| | - Maryam Naseri
- Department of Physics and Astronomy, Louisiana State University, Baton Rouge, LA, USA
| | - Faeze Salahshour
- Department of Radiology, School of Medicine, Advanced Diagnostic and Interventional Radiology Research Center (ADIR), Imam Khomeini Hospital, Tehran University of Medical Sciences, Tehran, Iran
- Liver Transplantation Research Center, Imam-Khomeini Hospital, Tehran University of Medical Sciences, Tehran, Iran
| | - Saeed Farzanefar
- Department of Nuclear Medicine, Vali-Asr Hospital, Tehran University of Medical Sciences, 1419731351, Tehran, Iran
| | - Mehrshad Abbasi
- Department of Nuclear Medicine, Vali-Asr Hospital, Tehran University of Medical Sciences, 1419731351, Tehran, Iran.
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5
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Jawarneh M, Arias-Gonzáles JL, Gandhmal DP, Malik RQ, Rane KP, Omarov B, Mahapatra C, Shabaz M. RETRACTED ARTICLE: Influence of grey wolf optimization feature selection on gradient boosting machine learning techniques for accurate detection of liver tumor. SN APPLIED SCIENCES 2023; 5:178. [DOI: 10.1007/s42452-023-05405-9] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/09/2023] [Accepted: 05/31/2023] [Indexed: 12/09/2024] Open
Abstract
AbstractMalignant growth in liver results in liver tumor. The most common types of liver cancer are primary liver disease and secondary liver disease. Most malignant growths are benign tumors, and the condition they cause, essential liver disease, is the end result. Cancer of the liver is a potentially fatal disease that can only be cured by combining a number of different treatments. Machine learning, feature selection and image processing have the capability to provide a framework for the accurate detection of liver diseases. The processing of images is one of the components that come together to form this group. When utilized for the purpose of reviewing previously recorded visual information, the instrument performs at its highest level of effectiveness. The importance of feature selection on machine learning algorithms for the early and accurate diagnosis of liver tumors is discussed in this article. The input consists of images from a CT scan of the liver. These images are preprocessed by discrete wavelet transform. Discrete wavelet transforms increase resolution by compressing the images. Images are segmented in parts to identify region of interest by K Means algorithm. Features are selected by grey wolf optimization technique. Classification is performed by Gradient boosting, support vector machine and random forest. GWO Gradient boosting is performing better in accurate classification and prediction of liver cancer.
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6
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Zhang S, Niu Y. LcmUNet: A Lightweight Network Combining CNN and MLP for Real-Time Medical Image Segmentation. Bioengineering (Basel) 2023; 10:712. [PMID: 37370643 PMCID: PMC10295621 DOI: 10.3390/bioengineering10060712] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/04/2023] [Revised: 05/26/2023] [Accepted: 06/06/2023] [Indexed: 06/29/2023] Open
Abstract
In recent years, UNet and its improved variants have become the main methods for medical image segmentation. Although these models have achieved excellent results in segmentation accuracy, their large number of network parameters and high computational complexity make it difficult to achieve medical image segmentation in real-time therapy and diagnosis rapidly. To address this problem, we introduce a lightweight medical image segmentation network (LcmUNet) based on CNN and MLP. We designed LcmUNet's structure in terms of model performance, parameters, and computational complexity. The first three layers are convolutional layers, and the last two layers are MLP layers. In the convolution part, we propose an LDA module that combines asymmetric convolution, depth-wise separable convolution, and an attention mechanism to reduce the number of network parameters while maintaining a strong feature-extraction capability. In the MLP part, we propose an LMLP module that helps enhance contextual information while focusing on local information and improves segmentation accuracy while maintaining high inference speed. This network also covers skip connections between the encoder and decoder at various levels. Our network achieves real-time segmentation results accurately in extensive experiments. With only 1.49 million model parameters and without pre-training, LcmUNet demonstrated impressive performance on different datasets. On the ISIC2018 dataset, it achieved an IoU of 85.19%, 92.07% recall, and 92.99% precision. On the BUSI dataset, it achieved an IoU of 63.99%, 79.96% recall, and 76.69% precision. Lastly, on the Kvasir-SEG dataset, LcmUNet achieved an IoU of 81.89%, 88.93% recall, and 91.79% precision.
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Affiliation(s)
| | - Yanmin Niu
- School of Computer and Information Science, Chongqing Normal University, Chongqing 401331, China;
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7
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Gupta S, Shabaz M, Gupta A, Alqahtani A, Alsubai S, Ofori I. Personal HealthCare of Things: A novel paradigm and futuristic approach. CAAI TRANSACTIONS ON INTELLIGENCE TECHNOLOGY 2023. [DOI: 10.1049/cit2.12220] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/13/2023] [Accepted: 03/29/2023] [Indexed: 12/09/2024] Open
Abstract
AbstractThis study provides an investigative approach and offers a complete review of research on Internet of Medical Things (IoMT), describing the progress in general and highlighting the research issues, trends, and future aspects of IoMT. Exploring a research strategy for IoMT systems is vital as the need for IoT in healthcare grows. By aggregating and merging data on critically important signals in hospitals, switching objects allows for better regulation of patients' physical states. The study proposes a novel approach, that is, Personal HealthCare of Things (PHoT), the idea is to bring personalisation in healthcare systems to target the individual issues and help to provide customised health services to potential patients. As a result, multiple studies were chosen, classified, and compared to evaluate the necessity for enhancing PHoT systems and introduce genuine concerns and future trends. This study provides a comprehensive overview of recent studies in IoMT that focus on applied methodologies, methods, and tools. In a nutshell, this study describes, systematically identifies, and taxonomically categorises IoMT research to provide an extensive comparison with the current publications' limits and potential. The study discusses the proposed PHoT architecture and aims to answer multiple investigations.
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Affiliation(s)
- Surbhi Gupta
- Model Institute of Engineering and Technology Jammu Jammu and Kashmir India
| | - Mohammad Shabaz
- Model Institute of Engineering and Technology Jammu Jammu and Kashmir India
| | - Ankur Gupta
- Model Institute of Engineering and Technology Jammu Jammu and Kashmir India
| | - Abdullah Alqahtani
- Software Engineering Department College of Computer Engineering and Sciences Prince Sattam Bin Abdulaziz University Al‐Kharj Saudi Arabia
| | - Shtwai Alsubai
- College of Computer Engineering and Sciences Prince Sattam Bin Abdulaziz University Al‐Kharj Saudi Arabia
| | - Isaac Ofori
- University of Mines and Technology Tarkwa Ghana
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8
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Survarachakan S, Prasad PJR, Naseem R, Pérez de Frutos J, Kumar RP, Langø T, Alaya Cheikh F, Elle OJ, Lindseth F. Deep learning for image-based liver analysis — A comprehensive review focusing on malignant lesions. Artif Intell Med 2022; 130:102331. [DOI: 10.1016/j.artmed.2022.102331] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/23/2021] [Revised: 05/23/2022] [Accepted: 05/30/2022] [Indexed: 11/26/2022]
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9
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Amin J, Anjum MA, Sharif M, Kadry S, Nadeem A, Ahmad SF. Liver Tumor Localization Based on YOLOv3 and 3D-Semantic Segmentation Using Deep Neural Networks. Diagnostics (Basel) 2022; 12:diagnostics12040823. [PMID: 35453870 PMCID: PMC9025116 DOI: 10.3390/diagnostics12040823] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/02/2022] [Revised: 03/18/2022] [Accepted: 03/22/2022] [Indexed: 12/17/2022] Open
Abstract
Worldwide, more than 1.5 million deaths are occur due to liver cancer every year. The use of computed tomography (CT) for early detection of liver cancer could save millions of lives per year. There is also an urgent need for a computerized method to interpret, detect and analyze CT scans reliably, easily, and correctly. However, precise segmentation of minute tumors is a difficult task because of variation in the shape, intensity, size, low contrast of the tumor, and the adjacent tissues of the liver. To address these concerns, a model comprised of three parts: synthetic image generation, localization, and segmentation, is proposed. An optimized generative adversarial network (GAN) is utilized for generation of synthetic images. The generated images are localized by using the improved localization model, in which deep features are extracted from pre-trained Resnet-50 models and fed into a YOLOv3 detector as an input. The proposed modified model localizes and classifies the minute liver tumor with 0.99 mean average precision (mAp). The third part is segmentation, in which pre-trained Inceptionresnetv2 employed as a base-Network of Deeplabv3 and subsequently is trained on fine-tuned parameters with annotated ground masks. The experiments reflect that the proposed approach has achieved greater than 95% accuracy in the testing phase and it is proven that, in comparison to the recently published work in this domain, this research has localized and segmented the liver and minute liver tumor with more accuracy.
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Affiliation(s)
- Javaria Amin
- Department of Computer Science, University of Wah, Wah Cantt 47040, Pakistan;
| | | | - Muhammad Sharif
- Department of Computer Science, Comsats University Islamabad, Wah Campus, Wah Cantt 47040, Pakistan;
| | - Seifedine Kadry
- Department of Applied Data Science, Noroff University College, 4609 Kristiansand, Norway
- Correspondence:
| | - Ahmed Nadeem
- Department of Pharmacology & Toxicology, College of Pharmacy, King Saud University, P.O. Box 2455, Riyadh 11451, Saudi Arabia; (A.N.); (S.F.A.)
| | - Sheikh F. Ahmad
- Department of Pharmacology & Toxicology, College of Pharmacy, King Saud University, P.O. Box 2455, Riyadh 11451, Saudi Arabia; (A.N.); (S.F.A.)
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10
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WU QIAN, CHEN QI, YU YONGJIAN, FAN LIANGJUN. 3D FULLY CONVOLUTIONAL NETWORK FOR THORAX MULTI-ORGANS SEMANTIC SEGMENTATION. J MECH MED BIOL 2022. [DOI: 10.1142/s0219519422400061] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022]
Abstract
Automatically delineating Organs-at-Risks (OARs) on computed tomography (CT) has the benefit of both reducing the time and improving the quality of radiotherapy (RT) planning. A 3D convolutional deep learning framework for multi-organs segmentation is proposed in this work; moreover, for the small volume OARs, a robust 3D squeeze-and-excitation (SE) feature extraction mechanism and a new Dice loss function are incorporated in the traditional 3D U-Net. We collected 60 thorax CT images set with annotations and expanded to 260 patients by the augmented method of randomly rotating [Formula: see text]6 degrees with a 1/3 probability and adding Gaussian noise. The objective is to segment five important organs: esophagus, spinal cord, heart, and bilateral lungs. Compared with 3D U-Net, 3D-2D U-Net proposed in our work increases the Dice similarity coefficient by 5% on average for the heart and bilateral lungs, and 3D Small Volume U-Net can further increase the Dice similarity coefficient to above 80% for the spinal cord. The experiment results demonstrate that the proposed model can improve the delineation accuracy of OARs from CT images.
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Affiliation(s)
- QIAN WU
- School of Humanistic Medicine, Anhui Medical University, Hefei 230032, P. R. China
| | - QI CHEN
- School of Humanistic Medicine, Anhui Medical University, Hefei 230032, P. R. China
| | - YONGJIAN YU
- School of Humanistic Medicine, Anhui Medical University, Hefei 230032, P. R. China
| | - LIANGJUN FAN
- School of Humanistic Medicine, Anhui Medical University, Hefei 230032, P. R. China
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11
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Aoyama G, Zhao L, Zhao S, Xue X, Zhong Y, Yamauchi H, Tsukihara H, Maeda E, Ino K, Tomii N, Takagi S, Sakuma I, Ono M, Sakaguchi T. Automatic Aortic Valve Cusps Segmentation from CT Images Based on the Cascading Multiple Deep Neural Networks. J Imaging 2022; 8:11. [PMID: 35049852 PMCID: PMC8780687 DOI: 10.3390/jimaging8010011] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/25/2021] [Revised: 12/22/2021] [Accepted: 12/30/2021] [Indexed: 02/01/2023] Open
Abstract
Accurate morphological information on aortic valve cusps is critical in treatment planning. Image segmentation is necessary to acquire this information, but manual segmentation is tedious and time consuming. In this paper, we propose a fully automatic aortic valve cusps segmentation method from CT images by combining two deep neural networks, spatial configuration-Net for detecting anatomical landmarks and U-Net for segmentation of aortic valve components. A total of 258 CT volumes of end systolic and end diastolic phases, which include cases with and without severe calcifications, were collected and manually annotated for each aortic valve component. The collected CT volumes were split 6:2:2 for the training, validation and test steps, and our method was evaluated by five-fold cross validation. The segmentation was successful for all CT volumes with 69.26 s as mean processing time. For the segmentation results of the aortic root, the right-coronary cusp, the left-coronary cusp and the non-coronary cusp, mean Dice Coefficient were 0.95, 0.70, 0.69, and 0.67, respectively. There were strong correlations between measurement values automatically calculated based on the annotations and those based on the segmentation results. The results suggest that our method can be used to automatically obtain measurement values for aortic valve morphology.
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Affiliation(s)
- Gakuto Aoyama
- Research and Development Center, Canon Medical Systems Corporation, 1385 Shimoishigami, Otawara 324-8550, Japan;
| | - Longfei Zhao
- Research and Development Center, Canon Medical Systems (CHINA) CO., LTD., Chao Yang District, Beijing 100015, China; (L.Z.); (S.Z.); (X.X.); (Y.Z.)
| | - Shun Zhao
- Research and Development Center, Canon Medical Systems (CHINA) CO., LTD., Chao Yang District, Beijing 100015, China; (L.Z.); (S.Z.); (X.X.); (Y.Z.)
| | - Xiao Xue
- Research and Development Center, Canon Medical Systems (CHINA) CO., LTD., Chao Yang District, Beijing 100015, China; (L.Z.); (S.Z.); (X.X.); (Y.Z.)
| | - Yunxin Zhong
- Research and Development Center, Canon Medical Systems (CHINA) CO., LTD., Chao Yang District, Beijing 100015, China; (L.Z.); (S.Z.); (X.X.); (Y.Z.)
| | - Haruo Yamauchi
- The University of Tokyo Hospital, 7-3-1 Hongo, Bunkyo-ku, Tokyo 113-8655, Japan; (H.Y.); (H.T.); (E.M.); (K.I.); (M.O.)
| | - Hiroyuki Tsukihara
- The University of Tokyo Hospital, 7-3-1 Hongo, Bunkyo-ku, Tokyo 113-8655, Japan; (H.Y.); (H.T.); (E.M.); (K.I.); (M.O.)
- School of Engineering, The University of Tokyo, 7-3-1 Hongo, Bunkyo-ku, Tokyo 113-8654, Japan; (N.T.); (S.T.); (I.S.)
| | - Eriko Maeda
- The University of Tokyo Hospital, 7-3-1 Hongo, Bunkyo-ku, Tokyo 113-8655, Japan; (H.Y.); (H.T.); (E.M.); (K.I.); (M.O.)
| | - Kenji Ino
- The University of Tokyo Hospital, 7-3-1 Hongo, Bunkyo-ku, Tokyo 113-8655, Japan; (H.Y.); (H.T.); (E.M.); (K.I.); (M.O.)
| | - Naoki Tomii
- School of Engineering, The University of Tokyo, 7-3-1 Hongo, Bunkyo-ku, Tokyo 113-8654, Japan; (N.T.); (S.T.); (I.S.)
| | - Shu Takagi
- School of Engineering, The University of Tokyo, 7-3-1 Hongo, Bunkyo-ku, Tokyo 113-8654, Japan; (N.T.); (S.T.); (I.S.)
| | - Ichiro Sakuma
- School of Engineering, The University of Tokyo, 7-3-1 Hongo, Bunkyo-ku, Tokyo 113-8654, Japan; (N.T.); (S.T.); (I.S.)
| | - Minoru Ono
- The University of Tokyo Hospital, 7-3-1 Hongo, Bunkyo-ku, Tokyo 113-8655, Japan; (H.Y.); (H.T.); (E.M.); (K.I.); (M.O.)
| | - Takuya Sakaguchi
- Research and Development Center, Canon Medical Systems Corporation, 1385 Shimoishigami, Otawara 324-8550, Japan;
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12
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Hill CE, Biasiolli L, Robson MD, Grau V, Pavlides M. Emerging artificial intelligence applications in liver magnetic resonance imaging. World J Gastroenterol 2021; 27:6825-6843. [PMID: 34790009 PMCID: PMC8567471 DOI: 10.3748/wjg.v27.i40.6825] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 02/06/2021] [Revised: 04/16/2021] [Accepted: 09/30/2021] [Indexed: 02/06/2023] Open
Abstract
Chronic liver diseases (CLDs) are becoming increasingly more prevalent in modern society. The use of imaging techniques for early detection, such as magnetic resonance imaging (MRI), is crucial in reducing the impact of these diseases on healthcare systems. Artificial intelligence (AI) algorithms have been shown over the past decade to excel at image-based analysis tasks such as detection and segmentation. When applied to liver MRI, they have the potential to improve clinical decision making, and increase throughput by automating analyses. With Liver diseases becoming more prevalent in society, the need to implement these techniques to utilize liver MRI to its full potential, is paramount. In this review, we report on the current methods and applications of AI methods in liver MRI, with a focus on machine learning and deep learning methods. We assess four main themes of segmentation, classification, image synthesis and artefact detection, and their respective potential in liver MRI and the wider clinic. We provide a brief explanation of some of the algorithms used and explore the current challenges affecting the field. Though there are many hurdles to overcome in implementing AI methods in the clinic, we conclude that AI methods have the potential to positively aid healthcare professionals for years to come.
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Affiliation(s)
- Charles E Hill
- Department of Engineering Science, University of Oxford, Oxford OX3 7DQ, United Kingdom
| | - Luca Biasiolli
- Radcliffe Department of Medicine, University of Oxford, Oxford OX3 9DU, United Kingdom
| | | | - Vicente Grau
- Department of Engineering, University of Oxford, Oxford OX3 7DQ, United Kingdom
| | - Michael Pavlides
- Oxford Centre for Clinical Magnetic Resonance Research, Division of Cardiovascular Medicine, Radcliffe Department of Medicine, University of Oxford, Oxford OX3 9DU, United Kingdom
- Translational Gastroenterology Unit, University of Oxford, Oxford OX3 9DU, United Kingdom
- Oxford NIHR Biomedical Research Centre, University of Oxford, Oxford OX3 9DU, United Kingdom
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13
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Wantanajittikul K, Saiviroonporn P, Saekho S, Krittayaphong R, Viprakasit V. An automated liver segmentation in liver iron concentration map using fuzzy c-means clustering combined with anatomical landmark data. BMC Med Imaging 2021; 21:138. [PMID: 34583631 PMCID: PMC8477544 DOI: 10.1186/s12880-021-00669-2] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/04/2021] [Accepted: 09/15/2021] [Indexed: 11/14/2022] Open
Abstract
Background To estimate median liver iron concentration (LIC) calculated from magnetic resonance imaging, excluded vessels of the liver parenchyma region were defined manually. Previous works proposed the automated method for excluding vessels from the liver region. However, only user-defined liver region remained a manual process. Therefore, this work aimed to develop an automated liver region segmentation technique to automate the whole process of median LIC calculation. Methods 553 MR examinations from 471 thalassemia major patients were used in this study. LIC maps (in mg/g dry weight) were calculated and used as the input of segmentation procedures. Anatomical landmark data were detected and used to restrict ROI. After that, the liver region was segmented using fuzzy c-means clustering and reduced segmentation errors by morphological processes. According to the clinical application, erosion with a suitable size of the structuring element was applied to reduce the segmented liver region to avoid uncertainty around the edge of the liver. The segmentation results were evaluated by comparing with manual segmentation performed by a board-certified radiologist. Results The proposed method was able to produce a good grade output in approximately 81% of all data. Approximately 11% of all data required an easy modification step. The rest of the output, approximately 8%, was an unsuccessful grade and required manual intervention by a user. For the evaluation matrices, percent dice similarity coefficient (%DSC) was in the range 86–92, percent Jaccard index (%JC) was 78–86, and Hausdorff distance (H) was 14–28 mm, respectively. In this study, percent false positive (%FP) and percent false negative (%FN) were applied to evaluate under- and over-segmentation that other evaluation matrices could not handle. The average of operation times could be reduced from 10 s per case using traditional method, to 1.5 s per case using our proposed method. Conclusion The experimental results showed that the proposed method provided an effective automated liver segmentation technique, which can be applied clinically for automated median LIC calculation in thalassemia major patients.
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Affiliation(s)
- Kittichai Wantanajittikul
- Department of Radiologic Technology, Faculty of Associated Medical Sciences, Chiang Mai University, Chiang Mai, Thailand
| | - Pairash Saiviroonporn
- Division of Diagnostic Radiology, Department of Radiology, Faculty of Medicine, Siriraj Hospital, Mahidol University, Bangkok, 10700, Thailand.
| | - Suwit Saekho
- Department of Radiologic Technology, Faculty of Associated Medical Sciences, Chiang Mai University, Chiang Mai, Thailand
| | - Rungroj Krittayaphong
- Division of Cardiology, Department of Medicine, Siriraj Hospital, Mahidol University, Bangkok, Thailand
| | - Vip Viprakasit
- Haematology/Oncology Division, Department of Pediatrics and Thalassemia Center, Siriraj Hospital, Mahidol University, Bangkok, Thailand
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Saiz-Vivó M, Colomer A, Fonfría C, Martí-Bonmatí L, Naranjo V. Supervised Domain Adaptation for Automated Semantic Segmentation of the Atrial Cavity. ENTROPY (BASEL, SWITZERLAND) 2021; 23:898. [PMID: 34356439 PMCID: PMC8304895 DOI: 10.3390/e23070898] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 05/13/2021] [Revised: 06/29/2021] [Accepted: 07/10/2021] [Indexed: 11/17/2022]
Abstract
Atrial fibrillation (AF) is the most common cardiac arrhythmia. At present, cardiac ablation is the main treatment procedure for AF. To guide and plan this procedure, it is essential for clinicians to obtain patient-specific 3D geometrical models of the atria. For this, there is an interest in automatic image segmentation algorithms, such as deep learning (DL) methods, as opposed to manual segmentation, an error-prone and time-consuming method. However, to optimize DL algorithms, many annotated examples are required, increasing acquisition costs. The aim of this work is to develop automatic and high-performance computational models for left and right atrium (LA and RA) segmentation from a few labelled MRI volumetric images with a 3D Dual U-Net algorithm. For this, a supervised domain adaptation (SDA) method is introduced to infer knowledge from late gadolinium enhanced (LGE) MRI volumetric training samples (80 LA annotated samples) to a network trained with balanced steady-state free precession (bSSFP) MR images of limited number of annotations (19 RA and LA annotated samples). The resulting knowledge-transferred model SDA outperformed the same network trained from scratch in both RA (Dice equals 0.9160) and LA (Dice equals 0.8813) segmentation tasks.
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Affiliation(s)
- Marta Saiz-Vivó
- Instituto de Investigación e Innovación en Bioingeniería, Universitat Politècnica de València, 46022 Valencia, Spain; (M.S.-V.); (V.N.)
| | - Adrián Colomer
- Instituto de Investigación e Innovación en Bioingeniería, Universitat Politècnica de València, 46022 Valencia, Spain; (M.S.-V.); (V.N.)
| | - Carles Fonfría
- Radiology Department, La Fe University and Polytechnic Hospital, 46026 Valencia, Spain; (C.F.); (L.M.-B.)
| | - Luis Martí-Bonmatí
- Radiology Department, La Fe University and Polytechnic Hospital, 46026 Valencia, Spain; (C.F.); (L.M.-B.)
- Biomedical Imaging Research Group (GIBI230-PREBI), La Fe Health Research Institute, 46026 Valencia, Spain
| | - Valery Naranjo
- Instituto de Investigación e Innovación en Bioingeniería, Universitat Politècnica de València, 46022 Valencia, Spain; (M.S.-V.); (V.N.)
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15
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Das S, Kharbanda K, M S, Raman R, D ED. Deep learning architecture based on segmented fundus image features for classification of diabetic retinopathy. Biomed Signal Process Control 2021. [DOI: 10.1016/j.bspc.2021.102600] [Citation(s) in RCA: 47] [Impact Index Per Article: 11.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2022]
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16
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Shin TY, Kim H, Lee JH, Choi JS, Min HS, Cho H, Kim K, Kang G, Kim J, Yoon S, Park H, Hwang YU, Kim HJ, Han M, Bae E, Yoon JW, Rha KH, Lee YS. Expert-level segmentation using deep learning for volumetry of polycystic kidney and liver. Investig Clin Urol 2021; 61:555-564. [PMID: 33135401 PMCID: PMC7606119 DOI: 10.4111/icu.20200086] [Citation(s) in RCA: 14] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/13/2020] [Revised: 06/03/2020] [Accepted: 06/23/2020] [Indexed: 11/18/2022] Open
Abstract
Purpose Volumetry is used in polycystic kidney and liver diseases (PKLDs), including autosomal dominant polycystic kidney disease (ADPKD), to assess disease progression and drug efficiency. However, since no rapid and accurate method for volumetry has been developed, volumetry has not yet been established in clinical practice, hindering the development of therapies for PKLD. This study presents an artificial intelligence (AI)-based volumetry method for PKLD. Materials and Methods The performance of AI was first evaluated in comparison with ground-truth (GT). We trained a V-net-based convolutional neural network on 175 ADPKD computed tomography (CT) segmentations, which served as the GT and were agreed upon by 3 experts using images from 214 patients analyzed with volumetry. The dice similarity coefficient (DSC), interobserver correlation coefficient (ICC), and Bland–Altman plots of 39 GT and AI segmentations in the validation set were compared. Next, the performance of AI on the segmentation of 50 random CT images was compared with that of 11 PKLD specialists based on the resulting DSC and ICC. Results The DSC and ICC of the AI were 0.961 and 0.999729, respectively. The error rate was within 3% for approximately 95% of the CT scans (error<1%, 46.2%; 1%≤error<3%, 48.7%). Compared with the specialists, AI showed moderate performance. Furthermore, an outlier in our results confirmed that even PKLD specialists can make mistakes in volumetry. Conclusions PKLD volumetry using AI was fast and accurate. AI performed comparably to human specialists, suggesting its use may be practical in clinical settings.
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Affiliation(s)
- Tae Young Shin
- Synergy A.I. Co.Ltd., Chuncheon, Korea.,Department of Urology, Hallym University Chuncheon Sacred Heart Hospital, Hallym University College of Medicine, Chuncheon, Korea
| | - Hyunsuk Kim
- Department of Internal Medicine, Division of Nephrology, Hallym University Chuncheon Sacred Heart Hospital, Hallym University College of Medicine, Chuncheon, Korea
| | | | - Jong Suk Choi
- Department of Urology, Hallym University Chuncheon Sacred Heart Hospital, Hallym University College of Medicine, Chuncheon, Korea
| | | | | | - Kyungwook Kim
- Schulich School of Medicine & Dentistry, The University of Western, Ontario, London, ON, Canada
| | - Geon Kang
- Department of Urology, Hallym University Chuncheon Sacred Heart Hospital, Hallym University College of Medicine, Chuncheon, Korea
| | - Jungkyu Kim
- Department of Urology, Hallym University Chuncheon Sacred Heart Hospital, Hallym University College of Medicine, Chuncheon, Korea
| | - Sieun Yoon
- Schulich School of Medicine & Dentistry, The University of Western, Ontario, London, ON, Canada
| | - Hyungyu Park
- Department of Urology, Hallym University Chuncheon Sacred Heart Hospital, Hallym University College of Medicine, Chuncheon, Korea
| | - Yeong Uk Hwang
- Department of Radiology, Inje University Ilsan Paik Hospital, Goyang, Korea
| | - Hyo Jin Kim
- Department of Internal Medicine, Pusan National University Hospital, Busan, Korea
| | - Miyeun Han
- Department of Internal Medicine, Pusan National University Hospital, Busan, Korea
| | - Eunjin Bae
- Department of Internal Medicine, Gyeongsang National University Changwon Hospital, Gyeongsang National University College of Medicine, Changwon, Korea
| | - Jong Woo Yoon
- Department of Internal Medicine, Division of Nephrology, Hallym University Chuncheon Sacred Heart Hospital, Hallym University College of Medicine, Chuncheon, Korea
| | - Koon Ho Rha
- Department of Urology, Urological Science Institute, Yonsei University College of Medicine, Seoul, Korea
| | - Yong Seong Lee
- Department of Urology, Hallym University Sacred Heart Hospital, Hallym University Collge of Medicine, Anyang, Korea.
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17
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Deep learning applications for IoT in health care: A systematic review. INFORMATICS IN MEDICINE UNLOCKED 2021. [DOI: 10.1016/j.imu.2021.100550] [Citation(s) in RCA: 20] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/30/2022] Open
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18
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Automatic Drusen Segmentation for Age-Related Macular Degeneration in Fundus Images Using Deep Learning. ELECTRONICS 2020. [DOI: 10.3390/electronics9101617] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
Abstract
Drusen are the main aspect of detecting age-related macular degeneration (AMD). Ophthalmologists can evaluate the condition of AMD based on drusen in fundus images. However, in the early stage of AMD, the drusen areas are usually small and vague. This leads to challenges in the drusen segmentation task. Moreover, due to the high-resolution fundus images, it is hard to accurately predict the drusen areas with deep learning models. In this paper, we propose a multi-scale deep learning model for drusen segmentation. By exploiting both local and global information, we can improve the performance, especially in the early stages of AMD cases.
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Krishan A, Mittal D. Effective segmentation and classification of tumor on liver MRI and CT images using multi-kernel K-means clustering. ACTA ACUST UNITED AC 2020; 65:301-313. [PMID: 31747373 DOI: 10.1515/bmt-2018-0175] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/05/2018] [Accepted: 09/19/2019] [Indexed: 11/15/2022]
Abstract
Our proposed research technique intends to provide an effective liver magnetic resonance imaging (MRI) and computed tomography (CT) scan image classification which would play a significant role in medical dataset especially in feature selection and classification. There are a number of existing research works classifying the liver tumor disease. Early detection of liver tumor will help the patients to get cured rapidly. Our proposed research focuses on the classification of medical images with respect to the classification technique artificial neural network (ANN) to classify an image as normal or abnormal. In the pre-processing step, the input image is selected from the database and adaptive median filtering is used for noise removal. For better enhancement, histogram equalization (HE) is done in the noise-removed images. In the pre-processed images, the texture feature such as gray-level co-occurrence matrix (GLCM) and statistical features are extracted. From the extensive feature set, optimal features are selected using the optimal kernel K-means (OKK-means) clustering algorithm along with the oppositional firefly algorithm (OFA). The proposed method obtained 97.5% accuracy in the classification when compared to the existing method.
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Affiliation(s)
- Abhay Krishan
- Department of Electrical and Instrumentation Engineering, Thapar Institute of Engineering and Technology, Patiala, 147004 Punjab, India
| | - Deepti Mittal
- Department of Electrical and Instrumentation Engineering, Thapar Institute of Engineering and Technology, Patiala, Punjab, India
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20
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Jansen MJA, Kuijf HJ, Niekel M, Veldhuis WB, Wessels FJ, Viergever MA, Pluim JPW. Liver segmentation and metastases detection in MR images using convolutional neural networks. J Med Imaging (Bellingham) 2019; 6:044003. [PMID: 31620549 DOI: 10.1117/1.jmi.6.4.044003] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/20/2019] [Accepted: 09/17/2019] [Indexed: 12/19/2022] Open
Abstract
Primary tumors have a high likelihood of developing metastases in the liver, and early detection of these metastases is crucial for patient outcome. We propose a method based on convolutional neural networks to detect liver metastases. First, the liver is automatically segmented using the six phases of abdominal dynamic contrast-enhanced (DCE) MR images. Next, DCE-MR and diffusion weighted MR images are used for metastases detection within the liver mask. The liver segmentations have a median Dice similarity coefficient of 0.95 compared with manual annotations. The metastases detection method has a sensitivity of 99.8% with a median of two false positives per image. The combination of the two MR sequences in a dual pathway network is proven valuable for the detection of liver metastases. In conclusion, a high quality liver segmentation can be obtained in which we can successfully detect liver metastases.
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Affiliation(s)
- Mariëlle J A Jansen
- UMC Utrecht and Utrecht University, Image Sciences Institute Utrecht, The Netherlands
| | - Hugo J Kuijf
- UMC Utrecht and Utrecht University, Image Sciences Institute Utrecht, The Netherlands
| | - Maarten Niekel
- UMC Utrecht, Department of Radiology Utrecht, The Netherlands
| | | | - Frank J Wessels
- UMC Utrecht, Department of Radiology Utrecht, The Netherlands
| | - Max A Viergever
- UMC Utrecht and Utrecht University, Image Sciences Institute Utrecht, The Netherlands
| | - Josien P W Pluim
- UMC Utrecht and Utrecht University, Image Sciences Institute Utrecht, The Netherlands
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21
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Das A, Acharya UR, Panda SS, Sabut S. Deep learning based liver cancer detection using watershed transform and Gaussian mixture model techniques. COGN SYST RES 2019. [DOI: 10.1016/j.cogsys.2018.12.009] [Citation(s) in RCA: 60] [Impact Index Per Article: 10.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/07/2023]
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22
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Wang Y, Shi F, Cao L, Dey N, Wu Q, Ashour AS, Sherratt RS, Rajinikanth V, Wu L. Morphological Segmentation Analysis and Texture-based Support Vector Machines Classification on Mice Liver Fibrosis Microscopic Images. Curr Bioinform 2019. [DOI: 10.2174/1574893614666190304125221] [Citation(s) in RCA: 45] [Impact Index Per Article: 7.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/26/2022]
Abstract
Background:
To reduce the intensity of the work of doctors, pre-classification work
needs to be issued. In this paper, a novel and related liver microscopic image classification
analysis method is proposed.
Objective:
For quantitative analysis, segmentation is carried out to extract the quantitative
information of special organisms in the image for further diagnosis, lesion localization, learning
and treating anatomical abnormalities and computer-guided surgery.
</P><P>
Methods: In the current work, entropy-based features of microscopic fibrosis mice’ liver images
were analyzed using fuzzy c-cluster, k-means and watershed algorithms based on distance
transformations and gradient. A morphological segmentation based on a local threshold was
deployed to determine the fibrosis areas of images.
Results:
The segmented target region using the proposed method achieved high effective
microscopy fibrosis images segmenting of mice liver in terms of the running time, dice ratio and
precision. The image classification experiments were conducted using Gray Level Co-occurrence
Matrix (GLCM). The best classification model derived from the established characteristics was
GLCM which performed the highest accuracy of classification using a developed Support Vector
Machine (SVM). The training model using 11 features was found to be accurate when only trained
by 8 GLCMs.
Conclusion:
The research illustrated that the proposed method is a new feasible research approach
for microscopy mice liver image segmentation and classification using intelligent image analysis
techniques. It is also reported that the average computational time of the proposed approach was
only 2.335 seconds, which outperformed other segmentation algorithms with 0.8125 dice ratio and
0.5253 precision.</P>
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Affiliation(s)
- Yu Wang
- The First Affiliated Hospital of Wenzhou Medical University, Wenzhou, China
| | - Fuqian Shi
- The First Affiliated Hospital of Wenzhou Medical University, Wenzhou, China
| | - Luying Cao
- The First Affiliated Hospital of Wenzhou Medical University, Wenzhou, China
| | - Nilanjan Dey
- Department of Information Technology, Techno India College of Technology, West Bengal, India
| | - Qun Wu
- Universal Design Institute, Zhejiang Sci-Tech University, Hangzhou, China
| | - Amira Salah Ashour
- Department of Electronics and Electrical Communications Engineering, Faculty of Engineering, Tanta University, Tanta, Egypt
| | - Robert Simon Sherratt
- Department of Biomedical Engineering, University of Reading, Reading, United Kingdom
| | | | - Lijun Wu
- Institute of Digitized Medicine, Wenzhou Medical University, Wenzhou, China
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23
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Wang K, Mamidipalli A, Retson T, Bahrami N, Hasenstab K, Blansit K, Bass E, Delgado T, Cunha G, Middleton MS, Loomba R, Neuschwander-Tetri BA, Sirlin CB, Hsiao A. Automated CT and MRI Liver Segmentation and Biometry Using a Generalized Convolutional Neural Network. Radiol Artif Intell 2019; 1. [PMID: 32582883 DOI: 10.1148/ryai.2019180022] [Citation(s) in RCA: 74] [Impact Index Per Article: 12.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022]
Abstract
Purpose To assess feasibility of training a convolutional neural network (CNN) to automate liver segmentation across different imaging modalities and techniques used in clinical practice and apply this to enable automation of liver biometry. Methods We trained a 2D U-Net CNN for liver segmentation in two stages using 330 abdominal MRI and CT exams acquired at our institution. First, we trained the neural network with non-contrast multi-echo spoiled-gradient-echo (SGPR)images with 300 MRI exams to provide multiple signal-weightings. Then, we used transfer learning to generalize the CNN with additional images from 30 contrast-enhanced MRI and CT exams.We assessed the performance of the CNN using a distinct multi-institutional data set curated from multiple sources (n = 498 subjects). Segmentation accuracy was evaluated by computing Dice scores. Utilizing these segmentations, we computed liver volume from CT and T1-weighted (T1w) MRI exams, and estimated hepatic proton- density-fat-fraction (PDFF) from multi-echo T2*w MRI exams. We compared quantitative volumetry and PDFF estimates between automated and manual segmentation using Pearson correlation and Bland-Altman statistics. Results Dice scores were 0.94 ± 0.06 for CT (n = 230), 0.95 ± 0.03 (n = 100) for T1w MR, and 0.92 ± 0.05 for T2*w MR (n = 169). Liver volume measured by manual and automated segmentation agreed closely for CT (95% limit-of-agreement (LoA) = [-298 mL, 180 mL]) and T1w MR (LoA = [-358 mL, 180 mL]). Hepatic PDFF measured by the two segmentations also agreed closely (LoA = [-0.62%, 0.80%]). Conclusions Utilizing a transfer-learning strategy, we have demonstrated the feasibility of a CNN to be generalized to perform liver segmentations across different imaging techniques and modalities. With further refinement and validation, CNNs may have broad applicability for multimodal liver volumetry and hepatic tissue characterization.
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Affiliation(s)
- Kang Wang
- Artificial Intelligence and Data Analytic Laboratory (AiDA lab), Department of Radiology, University of California, San Diego. La Jolla, CA 92092.,Liver Imaging Group, Department of Radiology, University of California, San Diego. La Jolla, CA 92092
| | - Adrija Mamidipalli
- Liver Imaging Group, Department of Radiology, University of California, San Diego. La Jolla, CA 92092
| | - Tara Retson
- Artificial Intelligence and Data Analytic Laboratory (AiDA lab), Department of Radiology, University of California, San Diego. La Jolla, CA 92092.,Liver Imaging Group, Department of Radiology, University of California, San Diego. La Jolla, CA 92092
| | - Naeim Bahrami
- Artificial Intelligence and Data Analytic Laboratory (AiDA lab), Department of Radiology, University of California, San Diego. La Jolla, CA 92092
| | - Kyle Hasenstab
- Liver Imaging Group, Department of Radiology, University of California, San Diego. La Jolla, CA 92092
| | - Kevin Blansit
- Artificial Intelligence and Data Analytic Laboratory (AiDA lab), Department of Radiology, University of California, San Diego. La Jolla, CA 92092
| | - Emily Bass
- Liver Imaging Group, Department of Radiology, University of California, San Diego. La Jolla, CA 92092
| | - Timoteo Delgado
- Liver Imaging Group, Department of Radiology, University of California, San Diego. La Jolla, CA 92092
| | - Guilherme Cunha
- Liver Imaging Group, Department of Radiology, University of California, San Diego. La Jolla, CA 92092
| | - Michael S Middleton
- Liver Imaging Group, Department of Radiology, University of California, San Diego. La Jolla, CA 92092
| | - Rohit Loomba
- Department of Hepatology, University of California, San Diego. La Jolla, CA 92029
| | | | - Claude B Sirlin
- Liver Imaging Group, Department of Radiology, University of California, San Diego. La Jolla, CA 92092
| | - Albert Hsiao
- Artificial Intelligence and Data Analytic Laboratory (AiDA lab), Department of Radiology, University of California, San Diego. La Jolla, CA 92092
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Liu H, Liu S, Guo D, Zheng Y, Tang P, Dan G. Original intensity preserved inhomogeneity correction and segmentation for liver magnetic resonance imaging. Biomed Signal Process Control 2019. [DOI: 10.1016/j.bspc.2018.08.005] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/28/2022]
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25
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Automated Techniques for the Interpretation of Fetal Abnormalities: A Review. Appl Bionics Biomech 2018; 2018:6452050. [PMID: 29983738 PMCID: PMC6015700 DOI: 10.1155/2018/6452050] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/22/2017] [Revised: 04/07/2018] [Accepted: 05/10/2018] [Indexed: 11/17/2022] Open
Abstract
Ultrasound (US) image segmentation methods, focusing on techniques developed for fetal biometric parameters and nuchal translucency, are briefly reviewed. Ultrasound medical images can easily identify the fetus using segmentation techniques and calculate fetal parameters. It can timely find the fetal abnormality so that necessary action can be taken by the pregnant woman. Firstly, a detailed literature has been offered on fetal biometric parameters and nuchal translucency to highlight the investigation approaches with a degree of validation in diverse clinical domains. Then, a categorization of the bibliographic assessment of recent research effort in the segmentation field of ultrasound 2D fetal images has been presented. The fetal images of high-risk pregnant women have been taken into the routine and continuous monitoring of fetal parameters. These parameters are used for detection of fetal weight, fetal growth, gestational age, and any possible abnormality detection.
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26
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Guerrout ELH, Ait-Aoudia S, Michelucci D, Mahiou R. Hidden Markov random field model and Broyden–Fletcher–Goldfarb–Shanno algorithm for brain image segmentation. J EXP THEOR ARTIF IN 2017. [DOI: 10.1080/0952813x.2017.1409280] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/18/2022]
Affiliation(s)
- EL-Hachemi Guerrout
- Laboratoire LMCS, Ecole nationale Supérieure en Informatique, Oued-Smar, Algeria
| | - Samy Ait-Aoudia
- Laboratoire LMCS, Ecole nationale Supérieure en Informatique, Oued-Smar, Algeria
| | | | - Ramdane Mahiou
- Laboratoire LMCS, Ecole nationale Supérieure en Informatique, Oued-Smar, Algeria
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27
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Dura E, Domingo J, Göçeri E, Martí-Bonmatí L. A method for liver segmentation in perfusion MR images using probabilistic atlases and viscous reconstruction. Pattern Anal Appl 2017. [DOI: 10.1007/s10044-017-0666-z] [Citation(s) in RCA: 21] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/15/2023]
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28
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Segmentation Method for Magnetic Resonance-Guided High-Intensity Focused Ultrasound Therapy Planning. JOURNAL OF HEALTHCARE ENGINEERING 2017; 2017:5703216. [PMID: 29065623 PMCID: PMC5498923 DOI: 10.1155/2017/5703216] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 02/24/2017] [Accepted: 04/26/2017] [Indexed: 11/17/2022]
Abstract
High-intensity focused ultrasound (HIFU) is a minimally invasive therapy modality in which ultrasound beams are concentrated at a focal region, producing a rise of temperature and selective ablation within the focal volume and leaving surrounding tissues intact. HIFU has been proposed for the safe ablation of both malignant and benign tissues and as an agent for drug delivery. Magnetic resonance imaging (MRI) has been proposed as guidance and monitoring method for the therapy. The identification of regions of interest is a crucial procedure in HIFU therapy planning. This procedure is performed in the MR images. The purpose of the present research work is to implement a time-efficient and functional segmentation scheme, based on the watershed segmentation algorithm, for the MR images used for the HIFU therapy planning. The achievement of a segmentation process with functional results is feasible, but preliminary image processing steps are required in order to define the markers for the segmentation algorithm. Moreover, the segmentation scheme is applied in parallel to an MR image data set through the use of a thread pool, achieving a near real-time execution and making a contribution to solve the time-consuming problem of the HIFU therapy planning.
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29
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Subudhi A, Jena S, Sabut S. Delineation of the ischemic stroke lesion based on watershed and relative fuzzy connectedness in brain MRI. Med Biol Eng Comput 2017; 56:795-807. [DOI: 10.1007/s11517-017-1726-7] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/17/2017] [Accepted: 09/14/2017] [Indexed: 10/18/2022]
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30
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Rebouças Filho PP, Sarmento RM, Holanda GB, de Alencar Lima D. New approach to detect and classify stroke in skull CT images via analysis of brain tissue densities. COMPUTER METHODS AND PROGRAMS IN BIOMEDICINE 2017; 148:27-43. [PMID: 28774437 DOI: 10.1016/j.cmpb.2017.06.011] [Citation(s) in RCA: 24] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/18/2016] [Revised: 06/14/2017] [Accepted: 06/23/2017] [Indexed: 05/10/2023]
Abstract
BACKGROUND AND OBJECTIVE Cerebral vascular accident (CVA), also known as stroke, is an important health problem worldwide and it affects 16 million people worldwide every year. About 30% of those that have a stroke die and 40% remain with serious physical limitations. However, recovery in the damaged region is possible if treatment is performed immediately. In the case of a stroke, Computed Tomography (CT) is the most appropriate technique to confirm the occurrence and to investigate its extent and severity. Stroke is an emergency problem for which early identification and measures are difficult; however, computer-aided diagnoses (CAD) can play an important role in obtaining information imperceptible to the human eye. Thus, this work proposes a new method for extracting features based on radiological density patterns of the brain, called Analysis of Brain Tissue Density (ABTD). METHODS The proposed method is a specific approach applied to CT images to identify and classify the occurrence of stroke diseases. The evaluation of the results of the ABTD extractor proposed in this paper were compared with extractors already established in the literature, such as features from Gray-Level Co-Occurrence Matrix (GLCM), Local binary patterns (LBP), Central Moments (CM), Statistical Moments (SM), Hu's Moment (HM) and Zernike's Moments (ZM). Using a database of 420 CT images of the skull, each extractor was applied with the classifiers such as MLP, SVM, kNN, OPF and Bayesian to classify if a CT image represented a healthy brain or one with an ischemic or hemorrhagic stroke. RESULTS ABTD had the shortest extraction time and the highest average accuracy (99.30%) when combined with OPF using the Euclidean distance. Also, the average accuracy values for all classifiers were higher than 95%. CONCLUSIONS The relevance of the results demonstrated that the ABTD method is a useful algorithm to extract features that can potentially be integrated with CAD systems to assist in stroke diagnosis.
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Affiliation(s)
- Pedro P Rebouças Filho
- Laboratório de Processamento Digital de Imagens e Simulação Computacional (LAPISCO), Instituto de Federal de Educação, Ciência e Tecnologia do Ceará (IFCE), Maracanaú, CE, Brazil.
| | - Róger Moura Sarmento
- Laboratório de Processamento Digital de Imagens e Simulação Computacional (LAPISCO), Instituto de Federal de Educação, Ciência e Tecnologia do Ceará (IFCE), Maracanaú, CE, Brazil.
| | - Gabriel Bandeira Holanda
- Laboratório de Processamento Digital de Imagens e Simulação Computacional (LAPISCO), Instituto de Federal de Educação, Ciência e Tecnologia do Ceará (IFCE), Maracanaú, CE, Brazil.
| | - Daniel de Alencar Lima
- Laboratório de Processamento Digital de Imagens e Simulação Computacional (LAPISCO), Instituto de Federal de Educação, Ciência e Tecnologia do Ceará (IFCE), Maracanaú, CE, Brazil.
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Huynh HT, Le-Trong N, Bao PT, Oto A, Suzuki K. Fully automated MR liver volumetry using watershed segmentation coupled with active contouring. Int J Comput Assist Radiol Surg 2016; 12:235-243. [PMID: 27873147 DOI: 10.1007/s11548-016-1498-9] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/14/2016] [Accepted: 10/28/2016] [Indexed: 12/16/2022]
Abstract
PURPOSE Our purpose is to develop a fully automated scheme for liver volume measurement in abdominal MR images, without requiring any user input or interaction. METHODS The proposed scheme is fully automatic for liver volumetry from 3D abdominal MR images, and it consists of three main stages: preprocessing, rough liver shape generation, and liver extraction. The preprocessing stage reduced noise and enhanced the liver boundaries in 3D abdominal MR images. The rough liver shape was revealed fully automatically by using the watershed segmentation, thresholding transform, morphological operations, and statistical properties of the liver. An active contour model was applied to refine the rough liver shape to precisely obtain the liver boundaries. The liver volumes calculated by the proposed scheme were compared to the "gold standard" references which were estimated by an expert abdominal radiologist. RESULTS The liver volumes computed by using our developed scheme excellently agreed (Intra-class correlation coefficient was 0.94) with the "gold standard" manual volumes by the radiologist in the evaluation with 27 cases from multiple medical centers. The running time was 8.4 min per case on average. CONCLUSIONS We developed a fully automated liver volumetry scheme in MR, which does not require any interaction by users. It was evaluated with cases from multiple medical centers. The liver volumetry performance of our developed system was comparable to that of the gold standard manual volumetry, and it saved radiologists' time for manual liver volumetry of 24.7 min per case.
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Affiliation(s)
- Hieu Trung Huynh
- Faculty of Information Technology, Industrial University of Ho Chi Minh City, Ho Chi Minh City, Vietnam.
| | - Ngoc Le-Trong
- Faculty of Information Technology, Industrial University of Ho Chi Minh City, Ho Chi Minh City, Vietnam.,Faculty of Information Technology, University of Science, Ho Chi Minh City, Vietnam
| | - Pham The Bao
- Faculty of Information Technology, University of Science, Ho Chi Minh City, Vietnam.,Faculty of Mathematics and Computer Science, University of Science, Ho Chi Minh City, Vietnam
| | - Aytek Oto
- Department of Radiology, The University of Chicago, Chicago, IL, 60637, USA
| | - Kenji Suzuki
- Medical Imaging Research Center, Illinois Institute of Technology, Chicago, IL, 60616, USA
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Kim Y, Bae SK, Cheng T, Tao C, Ge Y, Chapman AB, Torres VE, Yu ASL, Mrug M, Bennett WM, Flessner MF, Landsittel DP, Bae KT. Automated segmentation of liver and liver cysts from bounded abdominal MR images in patients with autosomal dominant polycystic kidney disease. Phys Med Biol 2016; 61:7864-7880. [PMID: 27779124 DOI: 10.1088/0031-9155/61/22/7864] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]
Abstract
Liver and liver cyst volume measurements are important quantitative imaging biomarkers for assessment of disease progression in autosomal dominant polycystic kidney disease (ADPKD) and polycystic liver disease (PLD). To date, no study has presented automated segmentation and volumetric computation of liver and liver cysts in these populations. In this paper, we proposed an automated segmentation framework for liver and liver cysts from bounded abdominal MR images in patients with ADPKD. To model the shape and variations in ADPKD livers, the spatial prior probability map (SPPM) of liver location and the tissue prior probability maps (TPPMs) of liver parenchymal tissue intensity and cyst morphology were generated. Formulated within a three-dimensional level set framework, the TPPMs successfully captured liver parenchymal tissues and cysts, while the SPPM globally constrained the initial surfaces of the liver into the desired boundary. Liver cysts were extracted by combined operations of the TPPMs, thresholding, and false positive reduction based on spatial prior knowledge of kidney cysts and distance map. With cross-validation for the liver segmentation, the agreement between the radiology expert and the proposed method was 84% for shape congruence and 91% for volume measurement assessed by the intra-class correlation coefficient (ICC). For the liver cyst segmentation, the agreement between the reference method and the proposed method was ICC = 0.91 for cyst volumes and ICC = 0.94 for % cyst-to-liver volume.
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Affiliation(s)
- Youngwoo Kim
- Department of Radiology, University of Pittsburgh School of Medicine, Pittsburgh, PA 15213, USA
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Liao X, Zhao J, Jiao C, Lei L, Qiang Y, Cui Q. A Segmentation Method for Lung Parenchyma Image Sequences Based on Superpixels and a Self-Generating Neural Forest. PLoS One 2016; 11:e0160556. [PMID: 27532214 PMCID: PMC4988714 DOI: 10.1371/journal.pone.0160556] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/11/2016] [Accepted: 07/21/2016] [Indexed: 01/10/2023] Open
Abstract
Background Lung parenchyma segmentation is often performed as an important pre-processing step in the computer-aided diagnosis of lung nodules based on CT image sequences. However, existing lung parenchyma image segmentation methods cannot fully segment all lung parenchyma images and have a slow processing speed, particularly for images in the top and bottom of the lung and the images that contain lung nodules. Method Our proposed method first uses the position of the lung parenchyma image features to obtain lung parenchyma ROI image sequences. A gradient and sequential linear iterative clustering algorithm (GSLIC) for sequence image segmentation is then proposed to segment the ROI image sequences and obtain superpixel samples. The SGNF, which is optimized by a genetic algorithm (GA), is then utilized for superpixel clustering. Finally, the grey and geometric features of the superpixel samples are used to identify and segment all of the lung parenchyma image sequences. Results Our proposed method achieves higher segmentation precision and greater accuracy in less time. It has an average processing time of 42.21 seconds for each dataset and an average volume pixel overlap ratio of 92.22 ± 4.02% for four types of lung parenchyma image sequences.
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Affiliation(s)
- Xiaolei Liao
- College of Computer Science and Technology, Taiyuan University of Technology, Taiyuan, 030024, China
| | - Juanjuan Zhao
- College of Computer Science and Technology, Taiyuan University of Technology, Taiyuan, 030024, China
| | - Cheng Jiao
- PET/CT center of Shanxi coal Central Hospital, Taiyuan, Shanxi, 030024, China
| | - Lei Lei
- College of Computer Science and Technology, Taiyuan University of Technology, Taiyuan, 030024, China
| | - Yan Qiang
- College of Computer Science and Technology, Taiyuan University of Technology, Taiyuan, 030024, China
- * E-mail:
| | - Qiang Cui
- College of Computer Science and Technology, Taiyuan University of Technology, Taiyuan, 030024, China
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Bereciartua A, Picon A, Galdran A, Iriondo P. 3D active surfaces for liver segmentation in multisequence MRI images. COMPUTER METHODS AND PROGRAMS IN BIOMEDICINE 2016; 132:149-160. [PMID: 27282235 DOI: 10.1016/j.cmpb.2016.04.028] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/05/2015] [Revised: 03/10/2016] [Accepted: 04/26/2016] [Indexed: 06/06/2023]
Abstract
Biopsies for diagnosis can sometimes be replaced by non-invasive techniques such as CT and MRI. Surgeons require accurate and efficient methods that allow proper segmentation of the organs in order to ensure the most reliable intervention planning. Automated liver segmentation is a difficult and open problem where CT has been more widely explored than MRI. MRI liver segmentation represents a challenge due to the presence of characteristic artifacts, such as partial volumes, noise and low contrast. In this paper, we present a novel method for multichannel MRI automatic liver segmentation. The proposed method consists of the minimization of a 3D active surface by means of the dual approach to the variational formulation of the underlying problem. This active surface evolves over a probability map that is based on a new compact descriptor comprising spatial and multisequence information which is further modeled by means of a liver statistical model. This proposed 3D active surface approach naturally integrates volumetric regularization in the statistical model. The advantages of the compact visual descriptor together with the proposed approach result in a fast and accurate 3D segmentation method. The method was tested on 18 healthy liver studies and results were compared to a gold standard made by expert radiologists. Comparisons with other state-of-the-art approaches are provided by means of nine well established quality metrics. The obtained results improve these methodologies, achieving a Dice Similarity Coefficient of 98.59.
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Affiliation(s)
- Arantza Bereciartua
- Tecnalia Research & Innovation, Computer Vision Area, Parque Tecnológico de Bizkaia, Derio 48160, Spain.
| | - Artzai Picon
- Tecnalia Research & Innovation, Computer Vision Area, Parque Tecnológico de Bizkaia, Derio 48160, Spain
| | - Adrian Galdran
- Tecnalia Research & Innovation, Computer Vision Area, Parque Tecnológico de Bizkaia, Derio 48160, Spain
| | - Pedro Iriondo
- Department of System Engineering and Automatic, University of the Basque Country, Bilbao, Spain
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Huang Z, Jiang S, Yang Z, Ding Y, Wang W, Yu Y. Automatic multi-organ segmentation of prostate magnetic resonance images using watershed and nonsubsampled contourlet transform. Biomed Signal Process Control 2016. [DOI: 10.1016/j.bspc.2015.11.002] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
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Computerized Liver Segmentation from CT Images using Probabilistic Level Set Approach. ARABIAN JOURNAL FOR SCIENCE AND ENGINEERING 2015. [DOI: 10.1007/s13369-015-1871-y] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/27/2022]
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Abstract
Spleen segmentation is especially challenging as the majority of solid organs in the abdomen region have similar gray level range. Physician analysis of computed tomography (CT) images to assess abdominal trauma could be very time consuming and hence, automating this process can reduce time to treatment. The proposed method presented in this paper is a fully automated and knowledge based technique that employs anatomical information to accurately segment the spleen in CT images. The spleen detection procedure is proposed to locate the spleen in both healthy and injured cases. In the presence of hemorrhage and laceration, the edge merging technique is used. The accuracy of the method is measured by some criteria such as mis-segmented area, accuracy, specificity and sensitivity. The results show that the proposed spleen segmentation method performs well and outperforms other methods.
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Bereciartua A, Picon A, Galdran A, Iriondo P. Automatic 3D model-based method for liver segmentation in MRI based on active contours and total variation minimization. Biomed Signal Process Control 2015. [DOI: 10.1016/j.bspc.2015.04.005] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/16/2023]
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Zhao J, Ji G, Qiang Y, Han X, Pei B, Shi Z. A new method of detecting pulmonary nodules with PET/CT based on an improved watershed algorithm. PLoS One 2015; 10:e0123694. [PMID: 25853496 PMCID: PMC4390287 DOI: 10.1371/journal.pone.0123694] [Citation(s) in RCA: 24] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/09/2014] [Accepted: 03/06/2015] [Indexed: 11/19/2022] Open
Abstract
BACKGROUND Integrated 18F-fluorodeoxyglucose positron emission tomography/computed tomography (18F-FDG PET/CT) is widely performed for staging solitary pulmonary nodules (SPNs). However, the diagnostic efficacy of SPNs based on PET/CT is not optimal. Here, we propose a method of detection based on PET/CT that can differentiate malignant and benign SPNs with few false-positives. METHOD Our proposed method combines the features of positron-emission tomography (PET) and computed tomography (CT). A dynamic threshold segmentation method was used to identify lung parenchyma in CT images and suspicious areas in PET images. Then, an improved watershed method was used to mark suspicious areas on the CT image. Next, the support vector machine (SVM) method was used to classify SPNs based on textural features of CT images and metabolic features of PET images to validate the proposed method. RESULTS Our proposed method was more efficient than traditional methods and methods based on the CT or PET features alone (sensitivity 95.6%; average of 2.9 false positives per scan).
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Affiliation(s)
- Juanjuan Zhao
- College of Computer Science and Technology, Taiyuan University of Technology, Taiyuan 030024, China
| | - Guohua Ji
- College of Computer Science and Technology, Taiyuan University of Technology, Taiyuan 030024, China
| | - Yan Qiang
- College of Computer Science and Technology, Taiyuan University of Technology, Taiyuan 030024, China
| | - Xiaohong Han
- College of Computer Science and Technology, Taiyuan University of Technology, Taiyuan 030024, China
| | - Bo Pei
- College of Computer Science and Technology, Taiyuan University of Technology, Taiyuan 030024, China
| | - Zhenghao Shi
- College of Computer Science and Engineering, Xi’an University of Technology, Xi’an 710048, China
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Göçeri E, Gürcan MN, Dicle O. Fully automated liver segmentation from SPIR image series. Comput Biol Med 2014; 53:265-78. [PMID: 25192606 DOI: 10.1016/j.compbiomed.2014.08.009] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/11/2014] [Revised: 08/04/2014] [Accepted: 08/10/2014] [Indexed: 10/24/2022]
Abstract
Accurate liver segmentation is an important component of surgery planning for liver transplantation, which enables patients with liver disease a chance to survive. Spectral pre-saturation inversion recovery (SPIR) image sequences are useful for liver vessel segmentation because vascular structures in the liver are clearly visible in these sequences. Although level-set based segmentation techniques are frequently used in liver segmentation due to their flexibility to adapt to different problems by incorporating prior knowledge, the need to initialize the contours on each slice is a common drawback of such techniques. In this paper, we present a fully automated variational level set approach for liver segmentation from SPIR image sequences. Our approach is designed to be efficient while achieving high accuracy. The efficiency is achieved by (1) automatically defining an initial contour for each slice, and (2) automatically computing weight values of each term in the applied energy functional at each iteration during evolution. Automated detection and exclusion of spurious structures (e.g. cysts and other bright white regions on the skin) in the pre-processing stage increases the accuracy and robustness. We also present a novel approach to reduce computational cost by employing binary regularization of level set function. A signed pressure force function controls the evolution of the active contour. The method was applied to ten data sets. In each image, the performance of the algorithm was measured using the receiver operating characteristics method in terms of accuracy, sensitivity and specificity. The accuracy of the proposed method was 96%. Quantitative analyses of results indicate that the proposed method can accurately, efficiently and consistently segment liver images.
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Affiliation(s)
- Evgin Göçeri
- Department of Computer Engineering, Pamukkale University, Denizli, Turkey.
| | - Metin N Gürcan
- Department of Biomedical Informatics, The Ohio State University, Columbus, OH, USA
| | - Oğuz Dicle
- Department of Radiology, Faculty of Medicine, Dokuz Eylul University, Narlıdere, Izmir, Turkey
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A fusion method of Gabor wavelet transform and unsupervised clustering algorithms for tissue edge detection. ScientificWorldJournal 2014; 2014:964870. [PMID: 24790590 PMCID: PMC3982282 DOI: 10.1155/2014/964870] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/03/2013] [Accepted: 02/20/2014] [Indexed: 11/23/2022] Open
Abstract
This paper proposes two edge detection methods for medical images by integrating the advantages of Gabor wavelet transform (GWT) and unsupervised clustering algorithms. The GWT is used to enhance the edge information in an image while suppressing noise. Following this, the k-means and Fuzzy c-means (FCM) clustering algorithms are used to convert a gray level image into a binary image. The proposed methods are tested using medical images obtained through Computed Tomography (CT) and Magnetic Resonance Imaging (MRI) devices, and a phantom image. The results prove that the proposed methods are successful for edge detection, even in noisy cases.
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López-Mir F, Naranjo V, Angulo J, Alcañiz M, Luna L. Liver segmentation in MRI: A fully automatic method based on stochastic partitions. COMPUTER METHODS AND PROGRAMS IN BIOMEDICINE 2014; 114:11-28. [PMID: 24529637 DOI: 10.1016/j.cmpb.2013.12.022] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/28/2012] [Revised: 12/20/2013] [Accepted: 12/24/2013] [Indexed: 06/03/2023]
Abstract
There are few fully automated methods for liver segmentation in magnetic resonance images (MRI) despite the benefits of this type of acquisition in comparison to other radiology techniques such as computed tomography (CT). Motivated by medical requirements, liver segmentation in MRI has been carried out. For this purpose, we present a new method for liver segmentation based on the watershed transform and stochastic partitions. The classical watershed over-segmentation is reduced using a marker-controlled algorithm. To improve accuracy of selected contours, the gradient of the original image is successfully enhanced by applying a new variant of stochastic watershed. Moreover, a final classifier is performed in order to obtain the final liver mask. Optimal parameters of the method are tuned using a training dataset and then they are applied to the rest of studies (17 datasets). The obtained results (a Jaccard coefficient of 0.91 ± 0.02) in comparison to other methods demonstrate that the new variant of stochastic watershed is a robust tool for automatic segmentation of the liver in MRI.
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Affiliation(s)
- F López-Mir
- Instituto Interuniversitario de Investigación en Bioingeniería y Tecnología Orientada al Ser Humano, Universitat Politècnica de València, Camino de Vera s/n, 46022 Valencia, Spain.
| | - V Naranjo
- Instituto Interuniversitario de Investigación en Bioingeniería y Tecnología Orientada al Ser Humano, Universitat Politècnica de València, Camino de Vera s/n, 46022 Valencia, Spain
| | - J Angulo
- CMM-Centre de Morphologie Mathématique, Mathématiques et Systèmes, MINES Paristech, France
| | - M Alcañiz
- Instituto Interuniversitario de Investigación en Bioingeniería y Tecnología Orientada al Ser Humano, Universitat Politècnica de València, Camino de Vera s/n, 46022 Valencia, Spain; Ciber, Fisiopatología de Obesidad y Nutrición, CB06/03 Instituto de Salud Carlos III, Spain
| | - L Luna
- Hospital Clínica Benidorm (Unidad de Resonancia Magnética INSCANNER), Spain
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Luo Q, Qin W, Wen T, Gu J, Gaio N, Chen S, Li L, Xie Y. Segmentation of abdomen MR images using kernel graph cuts with shape priors. Biomed Eng Online 2013; 12:124. [PMID: 24295198 PMCID: PMC4220691 DOI: 10.1186/1475-925x-12-124] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/05/2013] [Accepted: 11/08/2013] [Indexed: 12/03/2022] Open
Abstract
Background Abdominal organs segmentation of magnetic resonance (MR) images is an important but challenging task in medical image processing. Especially for abdominal tissues or organs, such as liver and kidney, MR imaging is a very difficult task due to the fact that MR images are affected by intensity inhomogeneity, weak boundary, noise and the presence of similar objects close to each other. Method In this study, a novel method for tissue or organ segmentation in abdomen MR imaging is proposed; this method combines kernel graph cuts (KGC) with shape priors. First, the region growing algorithm and morphology operations are used to obtain the initial contour. Second, shape priors are obtained by training the shape templates, which were collected from different human subjects with kernel principle component analysis (KPCA) after the registration between all the shape templates and the initial contour. Finally, a new model is constructed by integrating the shape priors into the kernel graph cuts energy function. The entire process aims to obtain an accurate image segmentation. Results The proposed segmentation method has been applied to abdominal organs MR images. The results showed that a satisfying segmentation without boundary leakage and segmentation incorrect can be obtained also in presence of similar tissues. Quantitative experiments were conducted for comparing the proposed segmentation with other three methods: DRLSE, initial erosion contour and KGC without shape priors. The comparison is based on two quantitative performance measurements: the probabilistic rand index (PRI) and the variation of information (VoI). The proposed method has the highest PRI value (0.9912, 0.9983 and 0.9980 for liver, right kidney and left kidney respectively) and the lowest VoI values (1.6193, 0.3205 and 0.3217 for liver, right kidney and left kidney respectively). Conclusion The proposed method can overcome boundary leakage. Moreover it can segment liver and kidneys in abdominal MR images without segmentation errors due to the presence of similar tissues. The shape priors based on KPCA was integrated into fully automatic graph cuts algorithm (KGC) to make the segmentation algorithm become more robust and accurate. Furthermore, if a shelter is placed onto the target boundary, the proposed method can still obtain satisfying segmentation results.
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Affiliation(s)
| | | | | | - Jia Gu
- The Shenzhen Key Laboratory for Low-cost Healthcare, Shenzhen Institutes of Advanced Technology, Chinese Academy of Sciences, Shenzhen, P, R, China.
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Hui L, Mei GD, Xiang L. Cirrhosis classification based on MRI with duplicative-feature support vector machine (DFSVM). Biomed Signal Process Control 2013. [DOI: 10.1016/j.bspc.2013.03.001] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/27/2022]
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A Proposed Hybrid Medoid Shift with K-Means (HMSK) Segmentation Algorithm to Detect Tumor and Organs for Effective Radiotherapy. MINING INTELLIGENCE AND KNOWLEDGE EXPLORATION 2013. [DOI: 10.1007/978-3-319-03844-5_15] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/15/2023]
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