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Goyal P, Rani R, Singh K. An efficient ranking-based ensembled multiclassifier for neurodegenerative diseases classification using deep learning. J Neural Transm (Vienna) 2024:10.1007/s00702-024-02830-x. [PMID: 39249515 DOI: 10.1007/s00702-024-02830-x] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/19/2024] [Accepted: 08/22/2024] [Indexed: 09/10/2024]
Abstract
Neurodegenerative diseases are group of debilitating and progressive disorders that primarily affect the structure and functions of nervous system, leading to gradual loss of neurons and subsequent decline in cognitive, and behavioral activities. The two frequent diseases affecting the world's significant population falling in the above category are Alzheimer's disease (AD) and Parkinson's disease (PD). These disorders substantially impact the quality of life and burden healthcare systems and society. The demographic characteristics, and machine learning approaches have now been employed to diagnose these illnesses; however, they possess accuracy limitations. Therefore, the authors have developed ranking-based ensemble approach based on the weighted strategy of deep learning classifiers. The whole modeling procedure of the proposed approach incorporates three phases. In phase I, preprocessing techniques are applied to clean the noise in datasets to make it standardized according to deep learning models as it significantly impacts their performance. In phase II, five deep learning models are selected for classification and calculation of prediction results. In phase III, a ranking-based ensemble approach is proposed to ensemble the results of the five models after calculating the ranks and weights of them. In addition, the Magnetic Resonance Imaging (MRI) datasets named Alzheimer's Disease Neuroimaging Initiative (ADNI) for AD classification and Parkinson's Progressive Marker Initiative (PPMI) for PD classification are selected to validate the proposed approach. Furthermore, the proposed method achieved the classification accuracy on AD- Cognitive Normals (CN) at 97.89%, AD- Mild Cognitive Impairment (MCI) at 99.33% and CN-MCI at 99.44% and on PD-CN at 99.22%, PD- Scans Without Evidence of Dopaminergic Effect (SWEDD) at 97.56% and CN-SWEDD at 98.22% respectively. Also, the multi-class classification shows the promising accuracy of 97.18% for AD and 97.85% for PD for the proposed framework. The findings of the study show that the proposed deep learning-based ensemble technique is competitive for AD and PD prediction in both multiclass and binary class classification. Furthermore, the proposed approach enhances generalization performance in diagnosing neurodegenerative diseases and performs better than existing approaches.
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Affiliation(s)
- Palak Goyal
- Department of Computer Science and Engineering, Thapar Institute of Engineering and Technology, Patiala, Punjab, 147001, India.
| | - Rinkle Rani
- Department of Computer Science and Engineering, Thapar Institute of Engineering and Technology, Patiala, Punjab, 147001, India
| | - Karamjeet Singh
- Department of Computer Science and Engineering, Thapar Institute of Engineering and Technology, Patiala, Punjab, 147001, India
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Iqbal MS, Belal Bin Heyat M, Parveen S, Ammar Bin Hayat M, Roshanzamir M, Alizadehsani R, Akhtar F, Sayeed E, Hussain S, Hussein HS, Sawan M. Progress and trends in neurological disorders research based on deep learning. Comput Med Imaging Graph 2024; 116:102400. [PMID: 38851079 DOI: 10.1016/j.compmedimag.2024.102400] [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: 01/02/2024] [Revised: 05/07/2024] [Accepted: 05/13/2024] [Indexed: 06/10/2024]
Abstract
In recent years, deep learning (DL) has emerged as a powerful tool in clinical imaging, offering unprecedented opportunities for the diagnosis and treatment of neurological disorders (NDs). This comprehensive review explores the multifaceted role of DL techniques in leveraging vast datasets to advance our understanding of NDs and improve clinical outcomes. Beginning with a systematic literature review, we delve into the utilization of DL, particularly focusing on multimodal neuroimaging data analysis-a domain that has witnessed rapid progress and garnered significant scientific interest. Our study categorizes and critically analyses numerous DL models, including Convolutional Neural Networks (CNNs), LSTM-CNN, GAN, and VGG, to understand their performance across different types of Neurology Diseases. Through particular analysis, we identify key benchmarks and datasets utilized in training and testing DL models, shedding light on the challenges and opportunities in clinical neuroimaging research. Moreover, we discuss the effectiveness of DL in real-world clinical scenarios, emphasizing its potential to revolutionize ND diagnosis and therapy. By synthesizing existing literature and describing future directions, this review not only provides insights into the current state of DL applications in ND analysis but also covers the way for the development of more efficient and accessible DL techniques. Finally, our findings underscore the transformative impact of DL in reshaping the landscape of clinical neuroimaging, offering hope for enhanced patient care and groundbreaking discoveries in the field of neurology. This review paper is beneficial for neuropathologists and new researchers in this field.
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Affiliation(s)
- Muhammad Shahid Iqbal
- Department of Computer Science and Information Technology, Women University of Azad Jammu & Kashmir, Bagh, Pakistan.
| | - Md Belal Bin Heyat
- CenBRAIN Neurotech Center of Excellence, School of Engineering, Westlake University, Hangzhou, Zhejiang, China.
| | - Saba Parveen
- College of Electronics and Information Engineering, Shenzhen University, Shenzhen 518060, China.
| | | | - Mohamad Roshanzamir
- Department of Computer Engineering, Faculty of Engineering, Fasa University, Fasa, Iran.
| | - Roohallah Alizadehsani
- Institute for Intelligent Systems Research and Innovation, Deakin University, VIC 3216, Australia.
| | - Faijan Akhtar
- School of Computer Science and Engineering, University of Electronic Science and Technology of China, Chengdu, China.
| | - Eram Sayeed
- Kisan Inter College, Dhaurahara, Kushinagar, India.
| | - Sadiq Hussain
- Department of Examination, Dibrugarh University, Assam 786004, India.
| | - Hany S Hussein
- Electrical Engineering Department, Faculty of Engineering, King Khalid University, Abha 61411, Saudi Arabia; Electrical Engineering Department, Faculty of Engineering, Aswan University, Aswan 81528, Egypt.
| | - Mohamad Sawan
- CenBRAIN Neurotech Center of Excellence, School of Engineering, Westlake University, Hangzhou, Zhejiang, China.
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Fang K, Zheng X, Lin X, Dai Z. A comprehensive approach for osteoporosis detection through chest CT analysis and bone turnover markers: harnessing radiomics and deep learning techniques. Front Endocrinol (Lausanne) 2024; 15:1296047. [PMID: 38894742 PMCID: PMC11183288 DOI: 10.3389/fendo.2024.1296047] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 09/18/2023] [Accepted: 05/22/2024] [Indexed: 06/21/2024] Open
Abstract
Purpose The main objective of this study is to assess the possibility of using radiomics, deep learning, and transfer learning methods for the analysis of chest CT scans. An additional aim is to combine these techniques with bone turnover markers to identify and screen for osteoporosis in patients. Method A total of 488 patients who had undergone chest CT and bone turnover marker testing, and had known bone mineral density, were included in this study. ITK-SNAP software was used to delineate regions of interest, while radiomics features were extracted using Python. Multiple 2D and 3D deep learning models were trained to identify these regions of interest. The effectiveness of these techniques in screening for osteoporosis in patients was compared. Result Clinical models based on gender, age, and β-cross achieved an accuracy of 0.698 and an AUC of 0.665. Radiomics models, which utilized 14 selected radiomics features, achieved a maximum accuracy of 0.750 and an AUC of 0.739. The test group yielded promising results: the 2D Deep Learning model achieved an accuracy of 0.812 and an AUC of 0.855, while the 3D Deep Learning model performed even better with an accuracy of 0.854 and an AUC of 0.906. Similarly, the 2D Transfer Learning model achieved an accuracy of 0.854 and an AUC of 0.880, whereas the 3D Transfer Learning model exhibited an accuracy of 0.740 and an AUC of 0.737. Overall, the application of 3D deep learning and 2D transfer learning techniques on chest CT scans showed excellent screening performance in the context of osteoporosis. Conclusion Bone turnover markers may not be necessary for osteoporosis screening, as 3D deep learning and 2D transfer learning techniques utilizing chest CT scans proved to be equally effective alternatives.
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Affiliation(s)
- Kaibin Fang
- Department of Orthopaedic Surgery, The Second Affiliated Hospital of Fujian Medical University, Quanzhou, China
| | - Xiaoling Zheng
- Aviation College, Liming Vocational University, Quanzhou, China
| | - Xiaocong Lin
- Department of Orthopaedic Surgery, The Second Affiliated Hospital of Fujian Medical University, Quanzhou, China
| | - Zhangsheng Dai
- Department of Orthopaedic Surgery, The Second Affiliated Hospital of Fujian Medical University, Quanzhou, China
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Asadi F, Angsuwatanakul T, O’Reilly JA. Evaluating synthetic neuroimaging data augmentation for automatic brain tumour segmentation with a deep fully-convolutional network. IBRO Neurosci Rep 2024; 16:57-66. [PMID: 39007088 PMCID: PMC11240293 DOI: 10.1016/j.ibneur.2023.12.002] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/17/2023] [Accepted: 12/11/2023] [Indexed: 07/16/2024] Open
Abstract
Gliomas observed in medical images require expert neuro-radiologist evaluation for treatment planning and monitoring, motivating development of intelligent systems capable of automating aspects of tumour evaluation. Deep learning models for automatic image segmentation rely on the amount and quality of training data. In this study we developed a neuroimaging synthesis technique to augment data for training fully-convolutional networks (U-nets) to perform automatic glioma segmentation. We used StyleGAN2-ada to simultaneously generate fluid-attenuated inversion recovery (FLAIR) magnetic resonance images and corresponding glioma segmentation masks. Synthetic data were successively added to real training data (n = 2751) in fourteen rounds of 1000 and used to train U-nets that were evaluated on held-out validation (n = 590) and test sets (n = 588). U-nets were trained with and without geometric augmentation (translation, zoom and shear), and Dice coefficients were computed to evaluate segmentation performance. We also monitored the number of training iterations before stopping, total training time, and time per iteration to evaluate computational costs associated with training each U-net. Synthetic data augmentation yielded marginal improvements in Dice coefficients (validation set +0.0409, test set +0.0355), whereas geometric augmentation improved generalization (standard deviation between training, validation and test set performances of 0.01 with, and 0.04 without geometric augmentation). Based on the modest performance gains for automatic glioma segmentation we find it hard to justify the computational expense of developing a synthetic image generation pipeline. Future work may seek to optimize the efficiency of synthetic data generation for augmentation of neuroimaging data.
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Affiliation(s)
- Fawad Asadi
- College of Biomedical Engineering, Rangsit University, Pathum Thani 12000, Thailand
| | | | - Jamie A. O’Reilly
- School of Engineering, King Mongkut’s Institute of Technology Ladkrabang, Bangkok 10520, Thailand
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Kumar S, Kumar H, Kumar G, Singh SP, Bijalwan A, Diwakar M. A methodical exploration of imaging modalities from dataset to detection through machine learning paradigms in prominent lung disease diagnosis: a review. BMC Med Imaging 2024; 24:30. [PMID: 38302883 PMCID: PMC10832080 DOI: 10.1186/s12880-024-01192-w] [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: 11/22/2023] [Accepted: 01/03/2024] [Indexed: 02/03/2024] Open
Abstract
BACKGROUND Lung diseases, both infectious and non-infectious, are the most prevalent cause of mortality overall in the world. Medical research has identified pneumonia, lung cancer, and Corona Virus Disease 2019 (COVID-19) as prominent lung diseases prioritized over others. Imaging modalities, including X-rays, computer tomography (CT) scans, magnetic resonance imaging (MRIs), positron emission tomography (PET) scans, and others, are primarily employed in medical assessments because they provide computed data that can be utilized as input datasets for computer-assisted diagnostic systems. Imaging datasets are used to develop and evaluate machine learning (ML) methods to analyze and predict prominent lung diseases. OBJECTIVE This review analyzes ML paradigms, imaging modalities' utilization, and recent developments for prominent lung diseases. Furthermore, the research also explores various datasets available publically that are being used for prominent lung diseases. METHODS The well-known databases of academic studies that have been subjected to peer review, namely ScienceDirect, arXiv, IEEE Xplore, MDPI, and many more, were used for the search of relevant articles. Applied keywords and combinations used to search procedures with primary considerations for review, such as pneumonia, lung cancer, COVID-19, various imaging modalities, ML, convolutional neural networks (CNNs), transfer learning, and ensemble learning. RESULTS This research finding indicates that X-ray datasets are preferred for detecting pneumonia, while CT scan datasets are predominantly favored for detecting lung cancer. Furthermore, in COVID-19 detection, X-ray datasets are prioritized over CT scan datasets. The analysis reveals that X-rays and CT scans have surpassed all other imaging techniques. It has been observed that using CNNs yields a high degree of accuracy and practicability in identifying prominent lung diseases. Transfer learning and ensemble learning are complementary techniques to CNNs to facilitate analysis. Furthermore, accuracy is the most favored metric for assessment.
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Affiliation(s)
- Sunil Kumar
- Department of Computer Engineering, J. C. Bose University of Science and Technology, YMCA, Faridabad, India
- Department of Information Technology, School of Engineering and Technology (UIET), CSJM University, Kanpur, India
| | - Harish Kumar
- Department of Computer Engineering, J. C. Bose University of Science and Technology, YMCA, Faridabad, India
| | - Gyanendra Kumar
- Department of Computer and Communication Engineering, Manipal University Jaipur, Jaipur, India
| | | | - Anchit Bijalwan
- Faculty of Electrical and Computer Engineering, Arba Minch University, Arba Minch, Ethiopia.
| | - Manoj Diwakar
- Department of Computer Science and Engineering, Graphic Era Deemed to Be University, Dehradun, India
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Naderalvojoud B, Hernandez-Boussard T. Improving machine learning with ensemble learning on observational healthcare data. AMIA ... ANNUAL SYMPOSIUM PROCEEDINGS. AMIA SYMPOSIUM 2024; 2023:521-529. [PMID: 38222353 PMCID: PMC10785929] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Subscribe] [Scholar Register] [Indexed: 01/16/2024]
Abstract
Ensemble learning is a powerful technique for improving the accuracy and reliability of prediction models, especially in scenarios where individual models may not perform well. However, combining models with varying accuracies may not always improve the final prediction results, as models with lower accuracies may obscure the results of models with higher accuracies. This paper addresses this issue and answers the question of when an ensemble approach outperforms individual models for prediction. As a result, we propose an ensemble model for predicting patients at risk of postoperative prolonged opioid. The model incorporates two machine learning models that are trained using different covariates, resulting in high precision and recall. Our study, which employs five different machine learning algorithms, shows that the proposed approach significantly improves the final prediction results in terms of AUROC and AUPRC.
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Affiliation(s)
- Behzad Naderalvojoud
- Department of Medicine, Biomedical Informatics, Stanford University, Stanford, CA, USA
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Chen K, Weng Y, Hosseini AA, Dening T, Zuo G, Zhang Y. A comparative study of GNN and MLP based machine learning for the diagnosis of Alzheimer's Disease involving data synthesis. Neural Netw 2024; 169:442-452. [PMID: 37939533 DOI: 10.1016/j.neunet.2023.10.040] [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: 05/12/2023] [Revised: 09/23/2023] [Accepted: 10/25/2023] [Indexed: 11/10/2023]
Abstract
Alzheimer's Disease (AD) is a neurodegenerative disease that commonly occurs in older people. It is characterized by both cognitive and functional impairment. However, as AD has an unclear pathological cause, it can be hard to diagnose with confidence. This is even more so in the early stage of Mild Cognitive Impairment (MCI). This paper proposes a U-Net based Generative Adversarial Network (GAN) to synthesize fluorodeoxyglucose - positron emission tomography (FDG-PET) from magnetic resonance imaging - T1 weighted imaging (MRI-T1WI) for further usage in AD diagnosis including its early-stage MCI. The experiments have displayed promising results with Structural Similarity Index Measure (SSIM) reaching 0.9714. Furthermore, three types of classifiers are developed, i.e., one Multi-Layer Perceptron (MLP) based classifier, two Graph Neural Network (GNN) based classifiers where one is for graph classification and the other is for node classification. 10-fold cross-validation has been conducted on all trials of experiments for classifier comparison. The performance of these three types of classifiers has been compared with the different input modalities setting and data fusion strategies. The results have shown that GNN based node classifier surpasses the other two types of classifiers, and has achieved the state-of-the-art (SOTA) performance with the best accuracy at 90.18% for 3-class classification, namely AD, MCI and normal control (NC) with the synthesized fluorodeoxyglucose - positron emission tomography (FDG-PET) features fused at the input level. Moreover, involving synthesized FDG-PET as part of the input with proper data fusion strategies has also proved to enhance all three types of classifiers' performance. This work provides support for the notion that machine learning-derived image analysis may be a useful approach to improving the diagnosis of AD.
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Affiliation(s)
- Ke Chen
- School of Computer Science, University of Nottingham Ningbo China, Ningbo, 315100, China; Ningbo Institute of Materials Technology and Engineering, Chinese Academy of Sciences, Ningbo, 315201, China; School of Medicine, University of Nottingham, Nottingham, NG7 2RD, UK.
| | - Ying Weng
- School of Computer Science, University of Nottingham Ningbo China, Ningbo, 315100, China.
| | - Akram A Hosseini
- Neurology Department, Nottingham University Hospitals NHS Trust, Nottingham, NG7 2UH, UK.
| | - Tom Dening
- School of Medicine, University of Nottingham, Nottingham, NG7 2RD, UK.
| | - Guokun Zuo
- Ningbo Institute of Materials Technology and Engineering, Chinese Academy of Sciences, Ningbo, 315201, China.
| | - Yiming Zhang
- School of Computer Science, University of Nottingham Ningbo China, Ningbo, 315100, China; School of Medicine, University of Nottingham, Nottingham, NG7 2RD, UK.
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8
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Ghayda RA, Cannarella R, Calogero AE, Shah R, Rambhatla A, Zohdy W, Kavoussi P, Avidor-Reiss T, Boitrelle F, Mostafa T, Saleh R, Toprak T, Birowo P, Salvio G, Calik G, Kuroda S, Kaiyal RS, Ziouziou I, Crafa A, Phuoc NHV, Russo GI, Durairajanayagam D, Al-Hashimi M, Hamoda TAAAM, Pinggera GM, Adriansjah R, Maldonado Rosas I, Arafa M, Chung E, Atmoko W, Rocco L, Lin H, Huyghe E, Kothari P, Solorzano Vazquez JF, Dimitriadis F, Garrido N, Homa S, Falcone M, Sabbaghian M, Kandil H, Ko E, Martinez M, Nguyen Q, Harraz AM, Serefoglu EC, Karthikeyan VS, Tien DMB, Jindal S, Micic S, Bellavia M, Alali H, Gherabi N, Lewis S, Park HJ, Simopoulou M, Sallam H, Ramirez L, Colpi G, Agarwal A. Artificial Intelligence in Andrology: From Semen Analysis to Image Diagnostics. World J Mens Health 2024; 42:39-61. [PMID: 37382282 PMCID: PMC10782130 DOI: 10.5534/wjmh.230050] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/02/2023] [Revised: 03/10/2023] [Accepted: 03/17/2023] [Indexed: 06/30/2023] Open
Abstract
Artificial intelligence (AI) in medicine has gained a lot of momentum in the last decades and has been applied to various fields of medicine. Advances in computer science, medical informatics, robotics, and the need for personalized medicine have facilitated the role of AI in modern healthcare. Similarly, as in other fields, AI applications, such as machine learning, artificial neural networks, and deep learning, have shown great potential in andrology and reproductive medicine. AI-based tools are poised to become valuable assets with abilities to support and aid in diagnosing and treating male infertility, and in improving the accuracy of patient care. These automated, AI-based predictions may offer consistency and efficiency in terms of time and cost in infertility research and clinical management. In andrology and reproductive medicine, AI has been used for objective sperm, oocyte, and embryo selection, prediction of surgical outcomes, cost-effective assessment, development of robotic surgery, and clinical decision-making systems. In the future, better integration and implementation of AI into medicine will undoubtedly lead to pioneering evidence-based breakthroughs and the reshaping of andrology and reproductive medicine.
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Affiliation(s)
- Ramy Abou Ghayda
- Urology Institute, University Hospitals, Case Western Reserve University, Cleveland, OH, USA
| | - Rossella Cannarella
- Department of Clinical and Experimental Medicine, University of Catania, Catania, Italy
- Glickman Urological & Kidney Institute, Cleveland Clinic Foundation, Cleveland, OH, USA
| | - Aldo E. Calogero
- Department of Clinical and Experimental Medicine, University of Catania, Catania, Italy
| | - Rupin Shah
- Department of Urology, Lilavati Hospital and Research Centre, Mumbai, India
| | - Amarnath Rambhatla
- Department of Urology, Henry Ford Health System, Vattikuti Urology Institute, Detroit, MI, USA
| | - Wael Zohdy
- Andrology and STDs, Cairo University, Cairo, Egypt
| | - Parviz Kavoussi
- Department of Urology, University of Texas Health Science Center at San Antonio, San Antonio, TX, USA
| | - Tomer Avidor-Reiss
- Department of Biological Sciences, University of Toledo, Toledo, OH, USA
- Department of Urology, College of Medicine and Life Sciences, University of Toledo, Toledo, OH, USA
| | - Florence Boitrelle
- Reproductive Biology, Fertility Preservation, Andrology, CECOS, Poissy Hospital, Poissy, France
- Department of Biology, Reproduction, Epigenetics, Environment, and Development, Paris Saclay University, UVSQ, INRAE, BREED, Paris, France
| | - Taymour Mostafa
- Andrology, Sexology & STIs Department, Faculty of Medicine, Cairo University, Cairo, Egypt
| | - Ramadan Saleh
- Department of Dermatology, Venereology and Andrology, Faculty of Medicine, Sohag University, Sohag, Egypt
| | - Tuncay Toprak
- Department of Urology, Fatih Sultan Mehmet Training and Research Hospital, University of Health Sciences, Istanbul, Turkey
| | - Ponco Birowo
- Department of Urology, Dr. Cipto Mangunkusumo Hospital, Faculty of Medicine, Universitas Indonesia, Jakarta, Indonesia
| | - Gianmaria Salvio
- Department of Endocrinology, Polytechnic University of Marche, Ancona, Italy
| | - Gokhan Calik
- Department of Urology, Istanbul Medipol University, Istanbul, Turkey
| | - Shinnosuke Kuroda
- Glickman Urological & Kidney Institute, Cleveland Clinic Foundation, Cleveland, OH, USA
- Department of Urology, Reproduction Center, Yokohama City University Medical Center, Yokohama, Japan
| | - Raneen Sawaid Kaiyal
- Glickman Urological & Kidney Institute, Cleveland Clinic Foundation, Cleveland, OH, USA
| | - Imad Ziouziou
- Department of Urology, College of Medicine and Pharmacy, Ibn Zohr University, Agadir, Morocco
| | - Andrea Crafa
- Department of Clinical and Experimental Medicine, University of Catania, Catania, Italy
| | - Nguyen Ho Vinh Phuoc
- Department of Andrology, Binh Dan Hospital, Ho Chi Minh City, Vietnam
- Department of Urology and Andrology, Pham Ngoc Thach University of Medicine, Ho Chi Minh City, Vietnam
| | | | - Damayanthi Durairajanayagam
- Department of Physiology, Faculty of Medicine, Universiti Teknologi MARA, Sungai Buloh Campus, Selangor, Malaysia
| | - Manaf Al-Hashimi
- Department of Urology, Burjeel Hospital, Abu Dhabi, United Arab Emirates (UAE)
- Khalifa University, College of Medicine and Health Science, Abu Dhabi, United Arab Emirates (UAE)
| | - Taha Abo-Almagd Abdel-Meguid Hamoda
- Department of Urology, King Abdulaziz University, Jeddah, Saudi Arabia
- Department of Urology, Faculty of Medicine, Minia University, El-Minia, Egypt
| | | | - Ricky Adriansjah
- Department of Urology, Hasan Sadikin General Hospital, Universitas Padjadjaran, Banding, Indonesia
| | | | - Mohamed Arafa
- Department of Urology, Hamad Medical Corporation, Doha, Qatar
- Department of Urology, Weill Cornell Medical-Qatar, Doha, Qatar
| | - Eric Chung
- Department of Urology, Princess Alexandra Hospital, University of Queensland, Brisbane QLD, Australia
| | - Widi Atmoko
- Department of Urology, Dr. Cipto Mangunkusumo Hospital, Faculty of Medicine, Universitas Indonesia, Jakarta, Indonesia
| | - Lucia Rocco
- Department of Environmental, Biological and Pharmaceutical Sciences and Technologies, University of Campania “Luigi Vanvitelli”, Caserta, Italy
| | - Haocheng Lin
- Department of Urology, Peking University Third Hospital, Peking University, Beijing, China
| | - Eric Huyghe
- Department of Urology and Andrology, University Hospital of Toulouse, Toulouse, France
| | - Priyank Kothari
- Department of Urology, B.Y.L. Nair Charitable Hospital, Topiwala National Medical College, Mumbai, India
| | | | - Fotios Dimitriadis
- Department of Urology, Aristotle University of Thessaloniki, Thessaloniki, Greece
| | - Nicolas Garrido
- IVIRMA Global Research Alliance, IVI Foundation, Instituto de Investigación Sanitaria La Fe (IIS La Fe), Valencia, Spain
| | - Sheryl Homa
- Department of Biosciences, University of Kent, Canterbury, United Kingdom
| | - Marco Falcone
- Department of Urology, Molinette Hospital, A.O.U. Città della Salute e della Scienza, University of Turin, Torino, Italy
| | - Marjan Sabbaghian
- Department of Andrology, Reproductive Biomedicine Research Center, Royan Institute for Reproductive Biomedicine, ACECR, Tehran, Iran
| | | | - Edmund Ko
- Department of Urology, Loma Linda University Health, Loma Linda, CA, USA
| | - Marlon Martinez
- Section of Urology, Department of Surgery, University of Santo Tomas Hospital, Manila, Philippines
| | - Quang Nguyen
- Section of Urology, Department of Surgery, University of Santo Tomas Hospital, Manila, Philippines
- Center for Andrology and Sexual Medicine, Viet Duc University Hospital, Hanoi, Vietnam
- Department of Urology, Andrology and Sexual Medicine, University of Medicine and Pharmacy, Vietnam National University, Hanoi, Vietnam
| | - Ahmed M. Harraz
- Urology and Nephrology Center, Mansoura University, Mansoura, Egypt
- Department of Surgery, Urology Unit, Farwaniya Hospital, Farwaniya, Kuwait
- Department of Urology, Sabah Al Ahmad Urology Center, Kuwait City, Kuwait
| | - Ege Can Serefoglu
- Department of Urology, Biruni University School of Medicine, Istanbul, Turkey
| | | | - Dung Mai Ba Tien
- Department of Andrology, Binh Dan Hospital, Ho Chi Minh City, Vietnam
| | - Sunil Jindal
- Department of Andrology and Reproductive Medicine, Jindal Hospital, Meerut, India
| | - Sava Micic
- Department of Andrology, Uromedica Polyclinic, Belgrade, Serbia
| | - Marina Bellavia
- Andrology and IVF Center, Next Fertility Procrea, Lugano, Switzerland
| | - Hamed Alali
- King Fahad Specialist Hospital, Dammam, Saudi Arabia
| | - Nazim Gherabi
- Andrology Committee of the Algerian Association of Urology, Algiers, Algeria
| | - Sheena Lewis
- Examen Lab Ltd., Northern Ireland, United Kingdom
| | - Hyun Jun Park
- Department of Urology, Pusan National University School of Medicine, Busan, Korea
- Medical Research Institute of Pusan National University Hospital, Busan, Korea
| | - Mara Simopoulou
- Department of Experimental Physiology, School of Health Sciences, Faculty of Medicine, National and Kapodistrian University of Athens, Athens, Greece
| | - Hassan Sallam
- Alexandria University Faculty of Medicine, Alexandria, Egypt
| | - Liliana Ramirez
- IVF Laboratory, CITMER Reproductive Medicine, Mexico City, Mexico
| | - Giovanni Colpi
- Andrology and IVF Center, Next Fertility Procrea, Lugano, Switzerland
| | - Ashok Agarwal
- Global Andrology Forum, Moreland Hills, OH, USA
- Cleveland Clinic, Cleveland, OH, USA
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Chen CC, Massey SL, Kirschen MP, Yuan I, Padiyath A, Simpao AF, Tsui FR. Electroencephalogram-based machine learning models to predict neurologic outcome after cardiac arrest: A systematic review. Resuscitation 2024; 194:110049. [PMID: 37972682 PMCID: PMC11023717 DOI: 10.1016/j.resuscitation.2023.110049] [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: 09/18/2023] [Revised: 11/07/2023] [Accepted: 11/09/2023] [Indexed: 11/19/2023]
Abstract
AIM OF THE REVIEW The primary aim of this systematic review was to investigate the most common electroencephalogram (EEG)-based machine learning (ML) model with the highest Area Under Receiver Operating Characteristic Curve (AUC) in two ML categories, conventional ML and Deep Neural Network (DNN), to predict the neurologic outcomes after cardiac arrest; the secondary aim was to investigate common EEG features applied to ML models. METHODS Systematic search of medical literature from PubMed and engineering literature from Compendex up to June 2, 2023. One reviewer screened studies that used EEG-based ML models to predict the neurologic outcomes after cardiac arrest. Four reviewers validated that the studies met selection criteria. Nine variables were manually extracted. The top-five common EEG features were calculated. We evaluated each study's risk of bias using the Quality in Prognosis Studies guideline. RESULTS Out of 351 identified studies, 17 studies met the inclusion criteria. Random Forest (RF) (n = 7) was the most common ML model in the conventional ML category (n = 11), followed by Convolutional Neural Network (CNN) (n = 4) in the DNN category (n = 6). The AUCs for RF ranged between 0.8 and 0.97, while CNN had AUCs between 0.7 and 0.92. The top-three commonly used EEG features were band power (n = 12), Shannon's Entropy (n = 11), burst-suppression ratio (n = 9). CONCLUSIONS RF and CNN were the two most common ML models with the highest AUCs for predicting the neurologic outcomes after cardiac arrest. Using a multimodal model that combines EEG features and electronic health record data may further improve prognostic performance.
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Affiliation(s)
- Chao-Chen Chen
- Tsui Laboratory, Children's Hospital of Philadelphia, 734 Schuylkill Ave, Philadelphia, PA 19146, United States; Department of Bioengineering, University of Pennsylvania, 240 Skirkanich Hall, 210 S 33rd St, Philadelphia, PA 19104, United States
| | - Shavonne L Massey
- Department of Neurology and Pediatrics, Children's Hospital of Philadelphia, 3401 Civic Center Blvd, Philadelphia, PA 19104, United States; Perelman School of Medicine, University of Pennsylvania, 3400 Civic Center Blvd, Philadelphia, PA 19104, United States
| | - Matthew P Kirschen
- Department of Neurology and Pediatrics, Children's Hospital of Philadelphia, 3401 Civic Center Blvd, Philadelphia, PA 19104, United States; Department of Anesthesiology and Critical Care Medicine, Children's Hospital of Philadelphia, 3401 Civic Center Blvd, Philadelphia, PA 19104, United States; Perelman School of Medicine, University of Pennsylvania, 3400 Civic Center Blvd, Philadelphia, PA 19104, United States
| | - Ian Yuan
- Department of Anesthesiology and Critical Care Medicine, Children's Hospital of Philadelphia, 3401 Civic Center Blvd, Philadelphia, PA 19104, United States; Perelman School of Medicine, University of Pennsylvania, 3400 Civic Center Blvd, Philadelphia, PA 19104, United States
| | - Asif Padiyath
- Department of Anesthesiology and Critical Care Medicine, Children's Hospital of Philadelphia, 3401 Civic Center Blvd, Philadelphia, PA 19104, United States; Perelman School of Medicine, University of Pennsylvania, 3400 Civic Center Blvd, Philadelphia, PA 19104, United States
| | - Allan F Simpao
- Department of Anesthesiology and Critical Care Medicine, Children's Hospital of Philadelphia, 3401 Civic Center Blvd, Philadelphia, PA 19104, United States; Perelman School of Medicine, University of Pennsylvania, 3400 Civic Center Blvd, Philadelphia, PA 19104, United States
| | - Fuchiang Rich Tsui
- Tsui Laboratory, Children's Hospital of Philadelphia, 734 Schuylkill Ave, Philadelphia, PA 19146, United States; Department of Anesthesiology and Critical Care Medicine, Children's Hospital of Philadelphia, 3401 Civic Center Blvd, Philadelphia, PA 19104, United States; Department of Biostatistics, Epidemiology, and Informatics, University of Pennsylvania, 423 Guardian Dr, Philadelphia, PA 19104, United States; Perelman School of Medicine, University of Pennsylvania, 3400 Civic Center Blvd, Philadelphia, PA 19104, United States.
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10
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Ericsson L, Hjalmarsson A, Akbar MU, Ferdian E, Bonini M, Hardy B, Schollenberger J, Aristova M, Winter P, Burris N, Fyrdahl A, Sigfridsson A, Schnell S, Figueroa CA, Nordsletten D, Young AA, Marlevi D. Generalized super-resolution 4D Flow MRI-using ensemble learning to extend across the cardiovascular system. ARXIV 2023:arXiv:2311.11819v2. [PMID: 38045482 PMCID: PMC10690302] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Subscribe] [Scholar Register] [Indexed: 12/05/2023]
Abstract
4D Flow Magnetic Resonance Imaging (4D Flow MRI) is a non-invasive measurement technique capable of quantifying blood flow across the cardiovascular system. While practical use is limited by spatial resolution and image noise, incorporation of trained super-resolution (SR) networks has potential to enhance image quality post-scan. However, these efforts have predominantly been restricted to narrowly defined cardiovascular domains, with limited exploration of how SR performance extends across the cardiovascular system; a task aggravated by contrasting hemodynamic conditions apparent across the cardiovasculature. The aim of our study was to explore the generalizability of SR 4D Flow MRI using a combination of heterogeneous training sets and dedicated ensemble learning. With synthetic training data generated across three disparate domains (cardiac, aortic, cerebrovascular), varying convolutional base and ensemble learners were evaluated as a function of domain and architecture, quantifying performance on both in-silico and acquired in-vivo data from the same three domains. Results show that both bagging and stacking ensembling enhance SR performance across domains, accurately predicting high-resolution velocities from low-resolution input data in-silico. Likewise, optimized networks successfully recover native resolution velocities from downsampled in-vivo data, as well as show qualitative potential in generating denoised SR-images from clinicallevel input data. In conclusion, our work presents a viable approach for generalized SR 4D Flow MRI, with ensemble learning extending utility across various clinical areas of interest.
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Affiliation(s)
- Leon Ericsson
- L.E., A.H., A.F., A.S., and D.M. are with Karolinska Institutet, Solna, Sweden. M.U.A. is with Linköping University, Linköping, Sweden. E.F. and A.A.Y. are with the University of Auckland, Auckland, New Zealand. M.B., B.H, N.B, C.A.F, and D.A.N. are with the University of Michigan, Ann Arbor, USA. J.S. is with the University of California San Francisco, San Francisco, CA, USA. M.A. ans S.S. are with Northwestern University, Chicago, USA. S.S. is also with the University of Greifswald, Germany. A.A.Y. is also with King's College London, London, UK. D.M. is also with Massachusetts Institute of Technology, Cambridge, USA
| | - Adam Hjalmarsson
- L.E., A.H., A.F., A.S., and D.M. are with Karolinska Institutet, Solna, Sweden. M.U.A. is with Linköping University, Linköping, Sweden. E.F. and A.A.Y. are with the University of Auckland, Auckland, New Zealand. M.B., B.H, N.B, C.A.F, and D.A.N. are with the University of Michigan, Ann Arbor, USA. J.S. is with the University of California San Francisco, San Francisco, CA, USA. M.A. ans S.S. are with Northwestern University, Chicago, USA. S.S. is also with the University of Greifswald, Germany. A.A.Y. is also with King's College London, London, UK. D.M. is also with Massachusetts Institute of Technology, Cambridge, USA
| | - Muhammad Usman Akbar
- L.E., A.H., A.F., A.S., and D.M. are with Karolinska Institutet, Solna, Sweden. M.U.A. is with Linköping University, Linköping, Sweden. E.F. and A.A.Y. are with the University of Auckland, Auckland, New Zealand. M.B., B.H, N.B, C.A.F, and D.A.N. are with the University of Michigan, Ann Arbor, USA. J.S. is with the University of California San Francisco, San Francisco, CA, USA. M.A. ans S.S. are with Northwestern University, Chicago, USA. S.S. is also with the University of Greifswald, Germany. A.A.Y. is also with King's College London, London, UK. D.M. is also with Massachusetts Institute of Technology, Cambridge, USA
| | - Edward Ferdian
- L.E., A.H., A.F., A.S., and D.M. are with Karolinska Institutet, Solna, Sweden. M.U.A. is with Linköping University, Linköping, Sweden. E.F. and A.A.Y. are with the University of Auckland, Auckland, New Zealand. M.B., B.H, N.B, C.A.F, and D.A.N. are with the University of Michigan, Ann Arbor, USA. J.S. is with the University of California San Francisco, San Francisco, CA, USA. M.A. ans S.S. are with Northwestern University, Chicago, USA. S.S. is also with the University of Greifswald, Germany. A.A.Y. is also with King's College London, London, UK. D.M. is also with Massachusetts Institute of Technology, Cambridge, USA
| | - Mia Bonini
- L.E., A.H., A.F., A.S., and D.M. are with Karolinska Institutet, Solna, Sweden. M.U.A. is with Linköping University, Linköping, Sweden. E.F. and A.A.Y. are with the University of Auckland, Auckland, New Zealand. M.B., B.H, N.B, C.A.F, and D.A.N. are with the University of Michigan, Ann Arbor, USA. J.S. is with the University of California San Francisco, San Francisco, CA, USA. M.A. ans S.S. are with Northwestern University, Chicago, USA. S.S. is also with the University of Greifswald, Germany. A.A.Y. is also with King's College London, London, UK. D.M. is also with Massachusetts Institute of Technology, Cambridge, USA
| | - Brandon Hardy
- L.E., A.H., A.F., A.S., and D.M. are with Karolinska Institutet, Solna, Sweden. M.U.A. is with Linköping University, Linköping, Sweden. E.F. and A.A.Y. are with the University of Auckland, Auckland, New Zealand. M.B., B.H, N.B, C.A.F, and D.A.N. are with the University of Michigan, Ann Arbor, USA. J.S. is with the University of California San Francisco, San Francisco, CA, USA. M.A. ans S.S. are with Northwestern University, Chicago, USA. S.S. is also with the University of Greifswald, Germany. A.A.Y. is also with King's College London, London, UK. D.M. is also with Massachusetts Institute of Technology, Cambridge, USA
| | - Jonas Schollenberger
- L.E., A.H., A.F., A.S., and D.M. are with Karolinska Institutet, Solna, Sweden. M.U.A. is with Linköping University, Linköping, Sweden. E.F. and A.A.Y. are with the University of Auckland, Auckland, New Zealand. M.B., B.H, N.B, C.A.F, and D.A.N. are with the University of Michigan, Ann Arbor, USA. J.S. is with the University of California San Francisco, San Francisco, CA, USA. M.A. ans S.S. are with Northwestern University, Chicago, USA. S.S. is also with the University of Greifswald, Germany. A.A.Y. is also with King's College London, London, UK. D.M. is also with Massachusetts Institute of Technology, Cambridge, USA
| | - Maria Aristova
- L.E., A.H., A.F., A.S., and D.M. are with Karolinska Institutet, Solna, Sweden. M.U.A. is with Linköping University, Linköping, Sweden. E.F. and A.A.Y. are with the University of Auckland, Auckland, New Zealand. M.B., B.H, N.B, C.A.F, and D.A.N. are with the University of Michigan, Ann Arbor, USA. J.S. is with the University of California San Francisco, San Francisco, CA, USA. M.A. ans S.S. are with Northwestern University, Chicago, USA. S.S. is also with the University of Greifswald, Germany. A.A.Y. is also with King's College London, London, UK. D.M. is also with Massachusetts Institute of Technology, Cambridge, USA
| | - Patrick Winter
- L.E., A.H., A.F., A.S., and D.M. are with Karolinska Institutet, Solna, Sweden. M.U.A. is with Linköping University, Linköping, Sweden. E.F. and A.A.Y. are with the University of Auckland, Auckland, New Zealand. M.B., B.H, N.B, C.A.F, and D.A.N. are with the University of Michigan, Ann Arbor, USA. J.S. is with the University of California San Francisco, San Francisco, CA, USA. M.A. ans S.S. are with Northwestern University, Chicago, USA. S.S. is also with the University of Greifswald, Germany. A.A.Y. is also with King's College London, London, UK. D.M. is also with Massachusetts Institute of Technology, Cambridge, USA
| | - Nicholas Burris
- L.E., A.H., A.F., A.S., and D.M. are with Karolinska Institutet, Solna, Sweden. M.U.A. is with Linköping University, Linköping, Sweden. E.F. and A.A.Y. are with the University of Auckland, Auckland, New Zealand. M.B., B.H, N.B, C.A.F, and D.A.N. are with the University of Michigan, Ann Arbor, USA. J.S. is with the University of California San Francisco, San Francisco, CA, USA. M.A. ans S.S. are with Northwestern University, Chicago, USA. S.S. is also with the University of Greifswald, Germany. A.A.Y. is also with King's College London, London, UK. D.M. is also with Massachusetts Institute of Technology, Cambridge, USA
| | - Alexander Fyrdahl
- L.E., A.H., A.F., A.S., and D.M. are with Karolinska Institutet, Solna, Sweden. M.U.A. is with Linköping University, Linköping, Sweden. E.F. and A.A.Y. are with the University of Auckland, Auckland, New Zealand. M.B., B.H, N.B, C.A.F, and D.A.N. are with the University of Michigan, Ann Arbor, USA. J.S. is with the University of California San Francisco, San Francisco, CA, USA. M.A. ans S.S. are with Northwestern University, Chicago, USA. S.S. is also with the University of Greifswald, Germany. A.A.Y. is also with King's College London, London, UK. D.M. is also with Massachusetts Institute of Technology, Cambridge, USA
| | - Andreas Sigfridsson
- L.E., A.H., A.F., A.S., and D.M. are with Karolinska Institutet, Solna, Sweden. M.U.A. is with Linköping University, Linköping, Sweden. E.F. and A.A.Y. are with the University of Auckland, Auckland, New Zealand. M.B., B.H, N.B, C.A.F, and D.A.N. are with the University of Michigan, Ann Arbor, USA. J.S. is with the University of California San Francisco, San Francisco, CA, USA. M.A. ans S.S. are with Northwestern University, Chicago, USA. S.S. is also with the University of Greifswald, Germany. A.A.Y. is also with King's College London, London, UK. D.M. is also with Massachusetts Institute of Technology, Cambridge, USA
| | - Susanne Schnell
- L.E., A.H., A.F., A.S., and D.M. are with Karolinska Institutet, Solna, Sweden. M.U.A. is with Linköping University, Linköping, Sweden. E.F. and A.A.Y. are with the University of Auckland, Auckland, New Zealand. M.B., B.H, N.B, C.A.F, and D.A.N. are with the University of Michigan, Ann Arbor, USA. J.S. is with the University of California San Francisco, San Francisco, CA, USA. M.A. ans S.S. are with Northwestern University, Chicago, USA. S.S. is also with the University of Greifswald, Germany. A.A.Y. is also with King's College London, London, UK. D.M. is also with Massachusetts Institute of Technology, Cambridge, USA
| | - C Alberto Figueroa
- L.E., A.H., A.F., A.S., and D.M. are with Karolinska Institutet, Solna, Sweden. M.U.A. is with Linköping University, Linköping, Sweden. E.F. and A.A.Y. are with the University of Auckland, Auckland, New Zealand. M.B., B.H, N.B, C.A.F, and D.A.N. are with the University of Michigan, Ann Arbor, USA. J.S. is with the University of California San Francisco, San Francisco, CA, USA. M.A. ans S.S. are with Northwestern University, Chicago, USA. S.S. is also with the University of Greifswald, Germany. A.A.Y. is also with King's College London, London, UK. D.M. is also with Massachusetts Institute of Technology, Cambridge, USA
| | - David Nordsletten
- L.E., A.H., A.F., A.S., and D.M. are with Karolinska Institutet, Solna, Sweden. M.U.A. is with Linköping University, Linköping, Sweden. E.F. and A.A.Y. are with the University of Auckland, Auckland, New Zealand. M.B., B.H, N.B, C.A.F, and D.A.N. are with the University of Michigan, Ann Arbor, USA. J.S. is with the University of California San Francisco, San Francisco, CA, USA. M.A. ans S.S. are with Northwestern University, Chicago, USA. S.S. is also with the University of Greifswald, Germany. A.A.Y. is also with King's College London, London, UK. D.M. is also with Massachusetts Institute of Technology, Cambridge, USA
| | - Alistair A Young
- L.E., A.H., A.F., A.S., and D.M. are with Karolinska Institutet, Solna, Sweden. M.U.A. is with Linköping University, Linköping, Sweden. E.F. and A.A.Y. are with the University of Auckland, Auckland, New Zealand. M.B., B.H, N.B, C.A.F, and D.A.N. are with the University of Michigan, Ann Arbor, USA. J.S. is with the University of California San Francisco, San Francisco, CA, USA. M.A. ans S.S. are with Northwestern University, Chicago, USA. S.S. is also with the University of Greifswald, Germany. A.A.Y. is also with King's College London, London, UK. D.M. is also with Massachusetts Institute of Technology, Cambridge, USA
| | - David Marlevi
- L.E., A.H., A.F., A.S., and D.M. are with Karolinska Institutet, Solna, Sweden. M.U.A. is with Linköping University, Linköping, Sweden. E.F. and A.A.Y. are with the University of Auckland, Auckland, New Zealand. M.B., B.H, N.B, C.A.F, and D.A.N. are with the University of Michigan, Ann Arbor, USA. J.S. is with the University of California San Francisco, San Francisco, CA, USA. M.A. ans S.S. are with Northwestern University, Chicago, USA. S.S. is also with the University of Greifswald, Germany. A.A.Y. is also with King's College London, London, UK. D.M. is also with Massachusetts Institute of Technology, Cambridge, USA
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11
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Grigas O, Maskeliūnas R, Damaševičius R. Improving Structural MRI Preprocessing with Hybrid Transformer GANs. Life (Basel) 2023; 13:1893. [PMID: 37763297 PMCID: PMC10532639 DOI: 10.3390/life13091893] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/20/2023] [Revised: 09/01/2023] [Accepted: 09/06/2023] [Indexed: 09/29/2023] Open
Abstract
Magnetic resonance imaging (MRI) is a technique that is widely used in practice to evaluate any pathologies in the human body. One of the areas of interest is the human brain. Naturally, MR images are low-resolution and contain noise due to signal interference, the patient's body's radio-frequency emissions and smaller Tesla coil counts in the machinery. There is a need to solve this problem, as MR tomographs that have the capability of capturing high-resolution images are extremely expensive and the length of the procedure to capture such images increases by the order of magnitude. Vision transformers have lately shown state-of-the-art results in super-resolution tasks; therefore, we decided to evaluate whether we can employ them for structural MRI super-resolution tasks. A literature review showed that similar methods do not focus on perceptual image quality because upscaled images are often blurry and are subjectively of poor quality. Knowing this, we propose a methodology called HR-MRI-GAN, which is a hybrid transformer generative adversarial network capable of increasing resolution and removing noise from 2D T1w MRI slice images. Experiments show that our method quantitatively outperforms other SOTA methods in terms of perceptual image quality and is capable of subjectively generalizing to unseen data. During the experiments, we additionally identified that the visual saliency-induced index metric is not applicable to MRI perceptual quality assessment and that general-purpose denoising networks are effective when removing noise from MR images.
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Affiliation(s)
- Ovidijus Grigas
- Faculty of Informatics, Kaunas University of Technology, 50254 Kaunas, Lithuania
| | - Rytis Maskeliūnas
- Faculty of Informatics, Kaunas University of Technology, 50254 Kaunas, Lithuania
| | - Robertas Damaševičius
- Faculty of Informatics, Kaunas University of Technology, 50254 Kaunas, Lithuania
- Department of Applied Informatics, Vytautas Magnus University, 44248 Kaunas, Lithuania
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12
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Hussain S, Haider S, Maqsood S, Damaševičius R, Maskeliūnas R, Khan M. ETISTP: An Enhanced Model for Brain Tumor Identification and Survival Time Prediction. Diagnostics (Basel) 2023; 13:diagnostics13081456. [PMID: 37189556 DOI: 10.3390/diagnostics13081456] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/14/2023] [Revised: 03/30/2023] [Accepted: 04/14/2023] [Indexed: 05/17/2023] Open
Abstract
Technology-assisted diagnosis is increasingly important in healthcare systems. Brain tumors are a leading cause of death worldwide, and treatment plans rely heavily on accurate survival predictions. Gliomas, a type of brain tumor, have particularly high mortality rates and can be further classified as low- or high-grade, making survival prediction challenging. Existing literature provides several survival prediction models that use different parameters, such as patient age, gross total resection status, tumor size, or tumor grade. However, accuracy is often lacking in these models. The use of tumor volume instead of size may improve the accuracy of survival prediction. In response to this need, we propose a novel model, the enhanced brain tumor identification and survival time prediction (ETISTP), which computes tumor volume, classifies it into low- or high-grade glioma, and predicts survival time with greater accuracy. The ETISTP model integrates four parameters: patient age, survival days, gross total resection (GTR) status, and tumor volume. Notably, ETISTP is the first model to employ tumor volume for prediction. Furthermore, our model minimizes the computation time by allowing for parallel execution of tumor volume computation and classification. The simulation results demonstrate that ETISTP outperforms prominent survival prediction models.
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Affiliation(s)
- Shah Hussain
- Department of Computer Science, City University of Science and Information Technology, Peshawar 25000, Pakistan
| | - Shahab Haider
- Department of Computer Science, City University of Science and Information Technology, Peshawar 25000, Pakistan
| | - Sarmad Maqsood
- Faculty of Informatics, Kaunas University of Technology, 51368 Kaunas, Lithuania
| | - Robertas Damaševičius
- Department of Applied Informatics, Vytautas Magnus University, 44404 Kaunas, Lithuania
| | - Rytis Maskeliūnas
- Faculty of Informatics, Kaunas University of Technology, 51368 Kaunas, Lithuania
- Faculty of Applied Mathematics, Silesian University of Technology, 44-100 Gliwice, Poland
| | - Muzammil Khan
- Department of Computer & Software Technology, University of Swat, Swat 19200, Pakistan
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Xu X, Lin L, Sun S, Wu S. A review of the application of three-dimensional convolutional neural networks for the diagnosis of Alzheimer's disease using neuroimaging. Rev Neurosci 2023:revneuro-2022-0122. [PMID: 36729918 DOI: 10.1515/revneuro-2022-0122] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/03/2022] [Accepted: 01/02/2023] [Indexed: 02/03/2023]
Abstract
Alzheimer's disease (AD) is a degenerative disorder that leads to progressive, irreversible cognitive decline. To obtain an accurate and timely diagnosis and detect AD at an early stage, numerous approaches based on convolutional neural networks (CNNs) using neuroimaging data have been proposed. Because 3D CNNs can extract more spatial discrimination information than 2D CNNs, they have emerged as a promising research direction in the diagnosis of AD. The aim of this article is to present the current state of the art in the diagnosis of AD using 3D CNN models and neuroimaging modalities, focusing on the 3D CNN architectures and classification methods used, and to highlight potential future research topics. To give the reader a better overview of the content mentioned in this review, we briefly introduce the commonly used imaging datasets and the fundamentals of CNN architectures. Then we carefully analyzed the existing studies on AD diagnosis, which are divided into two levels according to their inputs: 3D subject-level CNNs and 3D patch-level CNNs, highlighting their contributions and significance in the field. In addition, this review discusses the key findings and challenges from the studies and highlights the lessons learned as a roadmap for future research. Finally, we summarize the paper by presenting some major findings, identifying open research challenges, and pointing out future research directions.
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Affiliation(s)
- Xinze Xu
- Intelligent Physiological Measurement and Clinical Translation, Beijing International Platform for Scientific and Technological Cooperation, Department of Biomedical Engineering, Faculty of Environment and Life Sciences, Beijing University of Technology, Beijing 100124, China
| | - Lan Lin
- Intelligent Physiological Measurement and Clinical Translation, Beijing International Platform for Scientific and Technological Cooperation, Department of Biomedical Engineering, Faculty of Environment and Life Sciences, Beijing University of Technology, Beijing 100124, China
| | - Shen Sun
- Intelligent Physiological Measurement and Clinical Translation, Beijing International Platform for Scientific and Technological Cooperation, Department of Biomedical Engineering, Faculty of Environment and Life Sciences, Beijing University of Technology, Beijing 100124, China
| | - Shuicai Wu
- Intelligent Physiological Measurement and Clinical Translation, Beijing International Platform for Scientific and Technological Cooperation, Department of Biomedical Engineering, Faculty of Environment and Life Sciences, Beijing University of Technology, Beijing 100124, China
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