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Xiao X, Wang H, Jiang F, Qi T, Wang W. Medical short text classification via Soft Prompt-tuning. Front Med (Lausanne) 2025; 12:1519280. [PMID: 40297159 PMCID: PMC12034716 DOI: 10.3389/fmed.2025.1519280] [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: 12/20/2024] [Accepted: 03/28/2025] [Indexed: 04/30/2025] Open
Abstract
In recent decades, medical short texts, such as medical conversations and online medical inquiries, have garnered significant attention and research. The advances in the medical short text have profound implications in practical applications, particularly for classifying in-patient discharge summaries and medical text reports, leading to improved understandability for medical professionals. However, the challenges posed by the short length, professional medical vocabulary, complex medical measures, and feature sparsity are further magnified in medical short text classification compared to general domains. This paper introduces a novel soft prompt-tuning method designed specifically for medical short text classification. Inspired by the recent success of prompt- tuning, which has been extensively explored to enhance semantic modeling in various natural language processing tasks with the appearance of GPT-3, our method incorporates an automatic template generation method to address the issues related to short length and feature sparsity. Additionally, we propose two different strategies to expand the label word space, effectively handling the challenges associated with specialized medical vocabulary and complex medical measures in medical short texts. The experimental results demonstrate the effectiveness of our method and its potential as a significant advancement in medical short text classification. By addressing issues related to short text length, feature sparsity, and specialized medical terminology, it offers a promising advancement toward more accurate and interpretable medical text classification.
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Affiliation(s)
- Xiao Xiao
- Department of Ultrasound, The Affiliated Hospital of Yangzhou University, Yangzhou University, Yangzhou, China
| | - Han Wang
- Department of Information Engineering, Yangzhou University, Yangzhou, China
| | - Feng Jiang
- Department of Ultrasound, The First Affiliated Hospital of Wannan Medical College, Wuhu, China
| | - Tingyue Qi
- Department of Ultrasound, The Affiliated Hospital of Yangzhou University, Yangzhou University, Yangzhou, China
| | - Wei Wang
- Department of Radiology, The Affiliated Hospital of Yangzhou University, Yangzhou University, Yangzhou, China
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2
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Ren G, Wang P, Wang Z, Xie Z, Liu L, Wang Y, Wu X. Automated detection of cervical spondylotic myelopathy: harnessing the power of natural language processing. Front Neurosci 2025; 19:1421792. [PMID: 40177375 PMCID: PMC11962790 DOI: 10.3389/fnins.2025.1421792] [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: 04/23/2024] [Accepted: 03/03/2025] [Indexed: 04/05/2025] Open
Abstract
Background The objective of this study was to develop machine learning (ML) algorithms utilizing natural language processing (NLP) techniques for the automated detection of cervical spondylotic myelopathy (CSM) through the analysis of positive symptoms in free-text admission notes. This approach enables the timely identification and management of CSM, leading to optimal outcomes. Methods The dataset consisted of 1,214 patients diagnosed with cervical diseases as their primary condition between June 2013 and June 2020. A random ratio of 7:3 was employed to partition the dataset into training and testing subsets. Two machine learning models, Extreme Gradient Boosting (XGBoost) and Bidirectional Long Short Term Memory Network (LSTM), were developed. The performance of these models was assessed using various metrics, including the Receiver Operating Characteristic (ROC) curve, Area Under the Curve (AUC), accuracy, precision, recall, and F1 score. Results In the testing set, the LSTM achieved an AUC of 0.9025, an accuracy of 0.8740, a recall of 0.9560, an F1 score of 0.9122, and a precision of 0.8723. The LSTM model demonstrated superior clinical applicability compared to the XGBoost model, as evidenced by calibration curves and decision curve analysis. Conclusions The timely identification of suspected CSM allows for prompt confirmation of diagnosis and treatment. The utilization of NLP algorithm demonstrated excellent discriminatory capabilities in identifying CSM based on positive symptoms in free-text admission notes complaint data. This study showcases the potential of a pre-diagnosis system in the field of spine.
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Affiliation(s)
- GuanRui Ren
- Department of Orthopedics, Zhongda Hospital, Medical College, Southeast University, Nanjing, Jiangsu, China
| | - PeiYang Wang
- Department of Spine Surgery, Zhongda Hospital, Medical College, Southeast University, Nanjing, Jiangsu, China
| | - ZhiWei Wang
- Department of Orthopedics, Zhongda Hospital, Medical College, Southeast University, Nanjing, Jiangsu, China
| | - ZhiYang Xie
- Department of Spine Surgery, Zhongda Hospital, Medical College, Southeast University, Nanjing, Jiangsu, China
| | - Lei Liu
- Department of Spine Surgery, Zhongda Hospital, Medical College, Southeast University, Nanjing, Jiangsu, China
| | - YunTao Wang
- Department of Spine Surgery, Zhongda Hospital, Medical College, Southeast University, Nanjing, Jiangsu, China
- Xuyi County People's Hospital, Huai'an, Jiangsu, China
| | - XiaoTao Wu
- Department of Spine Surgery, Zhongda Hospital, Medical College, Southeast University, Nanjing, Jiangsu, China
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Patel AN, Srinivasan K. Deep learning paradigms in lung cancer diagnosis: A methodological review, open challenges, and future directions. Phys Med 2025; 131:104914. [PMID: 39938402 DOI: 10.1016/j.ejmp.2025.104914] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 02/13/2024] [Revised: 12/19/2024] [Accepted: 01/30/2025] [Indexed: 02/14/2025] Open
Abstract
Lung cancer is the leading cause of global cancer-related deaths, which emphasizes the critical importance of early diagnosis in enhancing patient outcomes. Deep learning has demonstrated significant promise in lung cancer diagnosis, excelling in nodule detection, classification, and prognosis prediction. This methodological review comprehensively explores deep learning models' application in lung cancer diagnosis, uncovering their integration across various imaging modalities. Deep learning consistently achieves state-of-the-art performance, occasionally surpassing human expert accuracy. Notably, deep neural networks excel in detecting lung nodules, distinguishing between benign and malignant nodules, and predicting patient prognosis. They have also led to the development of computer-aided diagnosis systems, enhancing diagnostic accuracy for radiologists. This review follows the specified criteria for article selection outlined by PRISMA framework. Despite challenges such as data quality and interpretability limitations, this review emphasizes the potential of deep learning to significantly improve the precision and efficiency of lung cancer diagnosis, facilitating continued research efforts to overcome these obstacles and fully harness neural network's transformative impact in this field.
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Affiliation(s)
- Aryan Nikul Patel
- School of Computer Science and Engineering, Vellore Institute of Technology, Vellore, India.
| | - Kathiravan Srinivasan
- School of Computer Science and Engineering, Vellore Institute of Technology, Vellore, India.
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Sohrabniya F, Hassanzadeh-Samani S, Ourang SA, Jafari B, Farzinnia G, Gorjinejad F, Ghalyanchi-Langeroudi A, Mohammad-Rahimi H, Tichy A, Motamedian SR, Schwendicke F. Exploring a decade of deep learning in dentistry: A comprehensive mapping review. Clin Oral Investig 2025; 29:143. [PMID: 39969623 DOI: 10.1007/s00784-025-06216-5] [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: 11/16/2024] [Accepted: 02/08/2025] [Indexed: 02/20/2025]
Abstract
OBJECTIVES Artificial Intelligence (AI), particularly deep learning, has significantly impacted healthcare, including dentistry, by improving diagnostics, treatment planning, and prognosis prediction. This systematic mapping review explores the current applications of deep learning in dentistry, offering a comprehensive overview of trends, models, and their clinical significance. MATERIALS AND METHODS Following a structured methodology, relevant studies published from January 2012 to September 2023 were identified through database searches in PubMed, Scopus, and Embase. Key data, including clinical purpose, deep learning tasks, model architectures, and data modalities, were extracted for qualitative synthesis. RESULTS From 21,242 screened studies, 1,007 were included. Of these, 63.5% targeted diagnostic tasks, primarily with convolutional neural networks (CNNs). Classification (43.7%) and segmentation (22.9%) were the main methods, and imaging data-such as cone-beam computed tomography and orthopantomograms-were used in 84.4% of cases. Most studies (95.2%) applied fully supervised learning, emphasizing the need for annotated data. Pathology (21.5%), radiology (17.5%), and orthodontics (10.2%) were prominent fields, with 24.9% of studies relating to more than one specialty. CONCLUSION This review explores the advancements in deep learning in dentistry, particulary for diagnostics, and identifies areas for further improvement. While CNNs have been used successfully, it is essential to explore emerging model architectures, learning approaches, and ways to obtain diverse and reliable data. Furthermore, fostering trust among all stakeholders by advancing explainable AI and addressing ethical considerations is crucial for transitioning AI from research to clinical practice. CLINICAL RELEVANCE This review offers a comprehensive overview of a decade of deep learning in dentistry, showcasing its significant growth in recent years. By mapping its key applications and identifying research trends, it provides a valuable guide for future studies and highlights emerging opportunities for advancing AI-driven dental care.
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Affiliation(s)
- Fatemeh Sohrabniya
- ITU/WHO/WIPO Global Initiative on Artificial Intelligence for Health - Dental Diagnostics and Digital Dentistry, Geneva, Switzerland
| | - Sahel Hassanzadeh-Samani
- ITU/WHO/WIPO Global Initiative on Artificial Intelligence for Health - Dental Diagnostics and Digital Dentistry, Geneva, Switzerland
- Dentofacial Deformities Research Center, Research Institute of Dental Sciences, Shahid Beheshti University of Medical Sciences, Tehran, Iran
| | - Seyed AmirHossein Ourang
- Dentofacial Deformities Research Center, Research Institute of Dental Sciences, Shahid Beheshti University of Medical Sciences, Tehran, Iran
| | - Bahare Jafari
- Division of Orthodontics, The Ohio State University, Columbus, OH, 43210, USA
| | | | - Fatemeh Gorjinejad
- ITU/WHO/WIPO Global Initiative on Artificial Intelligence for Health - Dental Diagnostics and Digital Dentistry, Geneva, Switzerland
| | - Azadeh Ghalyanchi-Langeroudi
- Medical Physics & Biomedical Engineering Department, School of Medicine, Tehran University of Medical Sciences, Tehran, Iran
- Research Center for Biomedical Technologies and Robotics (RCBTR),Advanced Medical Technology and Equipment Institute (AMTEI), Tehran University of Medical Science (TUMS), Tehran, Iran
| | - Hossein Mohammad-Rahimi
- Department of Dentistry and Oral Health, Aarhus University, Vennelyst Boulevard 9, Aarhus C, 8000, Aarhus, Denmark
- Department of Conservative Dentistry and Periodontology, LMU University Hospital, LMU Munich, Munich, Germany
| | - Antonin Tichy
- Department of Conservative Dentistry and Periodontology, LMU University Hospital, LMU Munich, Munich, Germany
- Institute of Dental Medicine, First Faculty of Medicine of the Charles University and General University Hospital, Prague, Czech Republic
| | - Saeed Reza Motamedian
- Dentofacial Deformities Research Center, Research Institute of Dental Sciences, Shahid Beheshti University of Medical Sciences, Tehran, Iran.
- Department of Orthodontics, School of Dentistry, Shahid Beheshti University of Medical Sciences, Tehran, Iran.
| | - Falk Schwendicke
- Department of Conservative Dentistry and Periodontology, LMU University Hospital, LMU Munich, Munich, Germany
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Henríquez PA, Araya N. Multimodal Alzheimer's disease classification through ensemble deep random vector functional link neural network. PeerJ Comput Sci 2024; 10:e2590. [PMID: 39896355 PMCID: PMC11784893 DOI: 10.7717/peerj-cs.2590] [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: 08/22/2024] [Accepted: 11/18/2024] [Indexed: 02/04/2025]
Abstract
Alzheimer's disease (AD) is a condition with a complex pathogenesis, sometimes hereditary, characterized by the loss of neurons and synapses, along with the presence of senile plaques and neurofibrillary tangles. Early detection, particularly among individuals at high risk, is critical for effective treatment or prevention, yet remains challenging due to data variability and incompleteness. Most current research relies on single data modalities, potentially limiting comprehensive staging of AD. This study addresses this gap by integrating multimodal data-including clinical and genetic information-using deep learning (DL) models, with a specific focus on random vector functional link (RVFL) networks, to enhance early detection of AD and mild cognitive impairment (MCI). Our findings demonstrate that ensemble deep RVFL (edRVFL) models, when combined with effective data imputation techniques such as Winsorized-mean (Wmean), achieve superior performance in detecting early stages of AD. Notably, the edRVFL model achieved an accuracy of 98.8%, precision of 98.3%, recall of 98.4%, and F1-score of 98.2%, outperforming traditional machine learning models like support vector machines, random forests, and decision trees. This underscores the importance of integrating advanced imputation strategies and deep learning techniques in AD diagnosis.
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Affiliation(s)
- Pablo A. Henríquez
- Departamento de Administración, Universidad Diego Portales, Santiago, Chile
| | - Nicolás Araya
- Escuela de Informática y Telecomunicaciones, Universidad Diego Portales, Santiago, Chile
- Department of Computer Science, Pontificia Universidad Católica de Chile, Santiago, Chile
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Lian J, Dong Z, Zhang H, Chen Y, Liu J. Multifocal region-assisted cross-modality learning for chest X-ray report generation. Comput Biol Med 2024; 183:109187. [PMID: 39437605 DOI: 10.1016/j.compbiomed.2024.109187] [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: 01/10/2024] [Revised: 09/19/2024] [Accepted: 09/20/2024] [Indexed: 10/25/2024]
Abstract
The prevalence of cardiovascular disease, tumors, and other chronic illnesses has been steadily rising in recent years. Researchers have recently been employing cross-modal large-scale models and natural language generation models to address the significant visual and textual disparities in medical report generation tasks. However, these training processes presents challenges, such as difficulties matching cross-modal information and generating specialized medical terminology. To tackle these issues, we propose a Multifocal Region-Assisted Report Generation Network (MRARGN) to enhance cross-modal information matching. Specifically, we integrate a pre-trained ResNet-50 with multi-channel and attention mechanisms for trainable X-ray image representation. We then combine our proposed memory response matrix with OpenAI's contrastive pre-training results to construct a dynamic knowledge graph that stores lesion features and their corresponding texts. Finally, we incorporate attention mechanisms and forget gate units to generate comprehensive textual descriptions for different lesions, using an image and report alignment loss. We conduct ablation experiments on the IU-Xray and MIMIC-CXR datasets to evaluate our approach. The experimental results demonstrate that our proposed MRARGN outperforms most state-of-the-art approaches, including their own variants.
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Affiliation(s)
- Jing Lian
- School of Electronics and Information Engineering, Lanzhou Jiaotong University, Lanzhou, Gansu 730070, China; School of Information Science and Engineering, Lanzhou University, Lanzhou, Gansu 730000, China
| | - Zilong Dong
- School of Electronics and Information Engineering, Lanzhou Jiaotong University, Lanzhou, Gansu 730070, China.
| | - Huaikun Zhang
- School of Electronics and Information Engineering, Lanzhou Jiaotong University, Lanzhou, Gansu 730070, China
| | - Yuekai Chen
- School of Electronics and Information Engineering, Lanzhou Jiaotong University, Lanzhou, Gansu 730070, China
| | - Jizhao Liu
- School of Information Science and Engineering, Lanzhou University, Lanzhou, Gansu 730000, China
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Zomorodi M, Ghodsollahee I, Martin JH, Talley NJ, Salari V, Pławiak P, Rahimi K, Acharya UR. RECOMED: A comprehensive pharmaceutical recommendation system. Artif Intell Med 2024; 157:102981. [PMID: 39306906 DOI: 10.1016/j.artmed.2024.102981] [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: 10/04/2023] [Revised: 09/06/2024] [Accepted: 09/10/2024] [Indexed: 11/14/2024]
Abstract
OBJECTIVES To build datasets containing useful information from drug databases and recommend a list of drugs to physicians and patients with high accuracy by considering a wide range of features of people, diseases, and chemicals. METHODS A comprehensive pharmaceutical recommendation system was designed based on the features of people, diseases, and medicines extracted from two major drug databases and the created datasets of patients and drug information. Then, the recommendation was given based on recommender system algorithms using patient and caregiver ratings and the knowledge obtained from drug specifications and interactions. Sentiment analysis was employed by natural language processing approaches in pre-processing, along with neural network-based methods and recommender system algorithms for modelling the system. Patient conditions and medicine features were used to make two models based on matrix factorization. Then, we used drug interaction criteria to filter drugs with severe or mild interactions with other drugs. We developed a deep learning model for recommending drugs using data from 2304 patients as a training set and 660 patients as our validation set. We used knowledge from drug information and combined the model's outcome into a knowledge-based system with the rules obtained from constraints on taking medicine. RESULTS Our recommendation system can recommend an acceptable combination of medicines similar to the existing prescriptions available in real life. Compared with conventional matrix factorization, our proposed model improves the accuracy, sensitivity, and hit rate by 26 %, 34 %, and 40 %, respectively. In addition, it improves the accuracy, sensitivity, and hit rate by an average of 31 %, 29 %, and 28 % compared to other machine learning methods. We have open-sourced our implementation in Python. CONCLUSION Compared to conventional machine learning approaches, we obtained average accuracy, sensitivity, and hit rates of 31 %, 29 %, and 28 %, respectively. Compared to conventional matrix factorisation our proposed method improved the accuracy, sensitivity, and hit rate by 26 %, 34 %, and 40 %, respectively. However, it is acknowledged that this is not the same as clinical accuracy or sensitivity, and more accurate results can be obtained by gathering larger datasets.
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Affiliation(s)
- Mariam Zomorodi
- Department of Computer Science, Faculty of Computer Science and Telecommunications, Cracow University of Technology, Krakow, Poland.
| | | | - Jennifer H Martin
- NHMRC Centre for Research Excellence in Digestive Health, Hunter Medical Research Institute (HMRI), The University of Newcastle, Callaghan, New South Wales, Australia
| | - Nicholas J Talley
- NHMRC Centre for Research Excellence in Digestive Health, Hunter Medical Research Institute (HMRI), The University of Newcastle, Callaghan, New South Wales, Australia
| | - Vahid Salari
- Institute for Quantum Science and Technology, Department of Physics and Astronomy, University of Calgary, Alberta, Canada
| | - Paweł Pławiak
- Department of Computer Science, Faculty of Computer Science and Telecommunications, Cracow University of Technology, Krakow, Poland; Institute of Theoretical and Applied Informatics, Polish Academy of Sciences, Gliwice, Poland
| | - Kazem Rahimi
- Deep Medicine, Nuffield Department of Women's and Reproductive Health, University of Oxford, Oxford, United Kingdom
| | - U R Acharya
- School of Mathematics, Physics and Computing, University of Southern Queensland, Toowoomba, QLD, Australia
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Tang R, Yang J, Tang J, Aridas NK, Talip MSA. Design of agricultural question answering information extraction method based on improved BILSTM algorithm. Sci Rep 2024; 14:24444. [PMID: 39424853 PMCID: PMC11489568 DOI: 10.1038/s41598-024-70534-z] [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: 05/05/2024] [Accepted: 08/19/2024] [Indexed: 10/21/2024] Open
Abstract
With the rapid growth of the agricultural information and the need for data analysis, how to accurately extract useful information from massive data has become an urgent first step in agricultural data mining and application. In this study, an agricultural question-answering information extraction method based on the BE-BILSTM (Improved Bidirectional Long Short-Term Memory) algorithm is designed. Firstly, it uses Python's Scrapy crawler framework to obtain the information of soil types, crop diseases and pests, and agricultural trade information, and remove abnormal values. Secondly, the information extraction converts the semi-structured data by using entity extraction methods. Thirdly, the BERT (Bidirectional Encoder Representations from Transformers) algorithm is introduced to improve the performance of the BILSTM algorithm. After comparing with the BERT-CRF (Conditional Random Field) and BILSTM algorithm, the result shows that the BE-BILSTM algorithm has better information extraction performance than the other two algorithms. This study improves the accuracy of the agricultural information recommendation system from the perspective of information extraction. Compared with other work that is done from the perspective of recommendation algorithm optimization, it is more innovative; it helps to understand the semantics and contextual relationships in agricultural question and answer, which improves the accuracy of agricultural information recommendation systems. By gaining a deeper understanding of farmers' needs and interests, the system can better recommend relevant and practical information.
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Affiliation(s)
- Ruipeng Tang
- Department of Electrical Engineering, Faculty of Engineering, University of Malaya, 50603, Kuala Lumpur, Malaysia.
| | - Jianbu Yang
- Faculty of Languages and Linguistics, University of Malaya, 50603, Kuala Lumpur, Malaysia
| | - Jianxun Tang
- Faculty of Electronics and Electrical Engineering, Zhaoqing University, No. 55, Zhaoqing City, Guangdong Province, China
| | - Narendra Kumar Aridas
- Department of Electrical Engineering, Faculty of Engineering, University of Malaya, 50603, Kuala Lumpur, Malaysia
| | - Mohamad Sofian Abu Talip
- Department of Electrical Engineering, Faculty of Engineering, University of Malaya, 50603, Kuala Lumpur, Malaysia
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Gao W, Rong F, Shao L, Deng Z, Xiao D, Zhang R, Chen C, Gong Z, Niu Z, Li F, Wei W, Ma L. Enhancing ophthalmology medical record management with multi-modal knowledge graphs. Sci Rep 2024; 14:23221. [PMID: 39369079 PMCID: PMC11455959 DOI: 10.1038/s41598-024-73316-9] [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: 05/14/2024] [Accepted: 09/16/2024] [Indexed: 10/07/2024] Open
Abstract
The electronic medical record management system plays a crucial role in clinical practice, optimizing the recording and management of healthcare data. To enhance the functionality of the medical record management system, this paper develops a customized schema designed for ophthalmic diseases. A multi-modal knowledge graph is constructed, which is built upon expert-reviewed and de-identified real-world ophthalmology medical data. Based on this data, we propose an auxiliary diagnostic model based on a contrastive graph attention network (CGAT-ADM), which uses the patient's diagnostic results as anchor points and achieves auxiliary medical record diagnosis services through graph clustering. By implementing contrastive methods and feature fusion of node types, text, and numerical information in medical records, the CGAT-ADM model achieved an average precision of 0.8563 for the top 20 similar case retrievals, indicating high performance in identifying analogous diagnoses. Our research findings suggest that medical record management systems underpinned by multimodal knowledge graphs significantly enhance the development of AI services. These systems offer a range of benefits, from facilitating assisted diagnosis and addressing similar patient inquiries to delving into potential case connections and disease patterns. This comprehensive approach empowers healthcare professionals to garner deeper insights and make well-informed decisions.
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Affiliation(s)
- Weihao Gao
- Shenzhen International Graduate School, Tsinghua University, Shenzhe, P.R. China
| | - Fuju Rong
- Shenzhen International Graduate School, Tsinghua University, Shenzhe, P.R. China
| | - Lei Shao
- Beijing Tongren Hospital, Capital Medical University, Beijing, P.R. China
| | - Zhuo Deng
- Shenzhen International Graduate School, Tsinghua University, Shenzhe, P.R. China
| | - Daimin Xiao
- Shenzhen International Graduate School, Tsinghua University, Shenzhe, P.R. China
| | - Ruiheng Zhang
- Beijing Tongren Hospital, Capital Medical University, Beijing, P.R. China
| | - Chucheng Chen
- Shenzhen International Graduate School, Tsinghua University, Shenzhe, P.R. China
| | - Zheng Gong
- Shenzhen International Graduate School, Tsinghua University, Shenzhe, P.R. China
| | - Zhiyuan Niu
- Shenzhen International Graduate School, Tsinghua University, Shenzhe, P.R. China
| | - Fang Li
- Shenzhen International Graduate School, Tsinghua University, Shenzhe, P.R. China
| | - Wenbin Wei
- Beijing Tongren Hospital, Capital Medical University, Beijing, P.R. China.
| | - Lan Ma
- Shenzhen International Graduate School, Tsinghua University, Shenzhe, P.R. China.
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10
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He W, Xiao Y, Li T, Wang R, Li Q. Interest HD: An Interest Frame Model for Recommendation Based on HD Image Generation. IEEE TRANSACTIONS ON NEURAL NETWORKS AND LEARNING SYSTEMS 2024; 35:14356-14369. [PMID: 37267138 DOI: 10.1109/tnnls.2023.3278673] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/04/2023]
Abstract
This work is inspired by high-definition (HD) image generation techniques. When the user's interests are viewed as different frames of varying clarity, the unclear parts of one interest frame can be clarified by other interest frames. The user's overall HD interest portrait can be viewed as a fusion of multiple interest frames through detail compensation. Based on this inspiration, we propose a model for generating HD interest portrait called interest frame for recommendation (IF4Rec). First, we present a fine-grained pixel-level user interest mining method, Pixel embedding (PE) uses positional coding techniques to mine atomic-level interest pixel matrices in multiple dimensions, such as time, space, and frequency. Then, using an atomic-level interest pixel matrix, we propose Item2Frame to generate several interest frames for a user. The similarity score of each item is calculated to fill the multi-interest pixel clusters, through an improved self-attention mechanism. Finally, stimulated by HD image generation techniques, we initially present an interest frame noise compensation method. By utilizing the multihead attention mechanism, pixel-level optimization and noise complementation are performed between multi-interest frames, and an HD interest portrait is achieved. Experiments show that our model mines users' interests well. On five publicly available datasets, our model outperforms the baselines.
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11
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G L SM, B S, Hemalatha S. Data-driven drug treatment: enhancing clinical decision-making with SalpPSO-optimized GraphSAGE. Comput Methods Biomech Biomed Engin 2024:1-23. [PMID: 39290070 DOI: 10.1080/10255842.2024.2399012] [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: 01/06/2024] [Revised: 03/13/2024] [Accepted: 08/21/2024] [Indexed: 09/19/2024]
Abstract
Safe drug recommendation systems play a crucial role in minimizing adverse drug reactions and enhancing patient safety. In this research, we propose an innovative approach to develop a safety drug recommendation system by integrating the Salp Swarm Optimization-based Particle Swarm Optimization (SalpPSO) with the GraphSAGE algorithm. The goal is to optimize the hyper parameters of GraphSAGE, enabling more accurate drug-drug interaction prediction and personalized drug recommendations. The research begins with data collection from real-world datasets, including MIMIC-III, Drug Bank, and ICD-9 ontology. The databases provide comprehensive and diverse clinical data related to patients, diseases, and drugs, forming the foundation of a knowledge graph. It represents drug-related entities and their relationships, such as drugs, indications, adverse effects, and drug-drug interactions. The knowledge graph's integration of patient data, disease ontology, and drug information enhances the system's accuracy to predict drug-drug interactions as well as identifying potential detrimental drug reactions. The GraphSAGE algorithm is employed as the base model for learning node embeddings in the knowledge graph. To enhance its performance, we propose the SalpPSO algorithm for hyper parameter optimization. SalpPSO combines features from Salp Swarm Optimization and Particle Swarm Optimization, offering a robust and effective optimization process. The optimized hyper parameters lead to more reliable and accurate drug recommendation system. For evaluation, the dataset is split into training and validation sets and compared the performance of the modified GraphSAGE model with SalpPSO-optimized hyper parameters to the standard models. The experimental analysis conducted in terms of various measures proves the efficiency of the proposed safe recommendation system, offering valuable for healthcare experts in making more informed and personalized drug treatment decisions for patients.
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Affiliation(s)
- Swathi Mirthika G L
- Department of Computing Technologies, School of Computing, SRM Institute of Science and Technology, Kattankulathur, Tamil Nadu, India
| | - Sivakumar B
- Department of Computing Technologies, School of Computing, SRM Institute of Science and Technology, Kattankulathur, Tamil Nadu, India
| | - S Hemalatha
- Department of Pharmacognosy, Sri Ramachandra Faculty of Pharmacy, Sri Ramachandra Institute of Higher Education and Research (Deemed to be University) Porur, Chennai, India
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Yuan J, He Y. Adoption of deep learning-based magnetic resonance image information diagnosis in brain function network analysis of Parkinson's disease patients with end-of-dose wearing-off. J Neurosci Methods 2024; 409:110184. [PMID: 38838748 DOI: 10.1016/j.jneumeth.2024.110184] [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: 03/06/2024] [Revised: 05/11/2024] [Accepted: 06/02/2024] [Indexed: 06/07/2024]
Abstract
OBJECTIVE this study was to analyze the brain functional network of end-of-dose wearing-off (EODWO) in patients with Parkinson's disease (PD) using a convolutional neural network (CNN)-based functional magnetic resonance imaging (fMRI) data classification model. METHODS one hundred PD patients were recruited and assigned to control (Ctrl) group (39 cases without EODWO) and experimental (Exp) group (61 cases with EODWO). The data classification model based on a CNN was employed to assist the analysis of the changes in brain functional network structure in the two groups. The CNN-based fMRI data classification model was primarily based on a CNN architecture, with improvements made to the initialization of convolutional kernel parameters. Firstly, a structure based on restricted Boltzmann machine (RBM) was constructed, followed by the initialization of convolutional kernel parameters. Subsequently, the model underwent training. Utilizing the data analysis module within the GRETNA toolbox, extracted feature sets were analyzed, including local measures such as betweenness centrality (BC) and degree centrality (DC), as well as global measures such as global efficiency (Eg) and local efficiency (Eloc). RESULTS as sparsity increased, there was a gradual upward trend observed in Eg; however, the values of Eg in both brain functional networks remained relatively stable within the range of 0.2-0.5. The Eg value of the Ctrl group's whole-brain functional network was 0.17 ± 0.02, while that of the Exp group's whole-brain functional network was 0.17 ± 0.03, with no significant difference between them (P>0.05). The functional DC value of the superior frontal gyrus in the Exp group (8.71 ± 2.56) was significantly lower than that of the Ctrl group (13.32 ± 3.22), whereas the functional DC value of the anterior cingulate gyrus in the Exp group (19.33 ± 4.78) was significantly higher than that of the Ctrl group (15.21 ± 4.02) (P<0.05). There was no significant correlation observed between the functional DC value and levodopa or dopamine agonist therapy (DDT) in the Exp group, whereas the Ctrl group exhibited a significant positive correlation. CONCLUSION analysis conducted via a CNN-based fMRI data classification model revealed a correlation between the occurrence of EODWO in PD patients and functional impairments in the left precuneus. Additionally, the occurrence of EODWO may potentially diminish the plasticity of the central prefrontal dopamine.
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Affiliation(s)
- Jingwen Yuan
- Department of Neurology, Zhuzhou Central Hospital, Zhuzhou, Hunan Province 412000, PR China
| | - Yan He
- Department of Neurology, Zhuzhou Central Hospital, Zhuzhou, Hunan Province 412000, PR China.
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Liu J, Du H, Huang L, Xie W, Liu K, Zhang X, Chen S, Zhang Y, Li D, Pan H. AI-Powered Microfluidics: Shaping the Future of Phenotypic Drug Discovery. ACS APPLIED MATERIALS & INTERFACES 2024; 16:38832-38851. [PMID: 39016521 DOI: 10.1021/acsami.4c07665] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 07/18/2024]
Abstract
Phenotypic drug discovery (PDD), which involves harnessing biological systems directly to uncover effective drugs, has undergone a resurgence in recent years. The rapid advancement of artificial intelligence (AI) over the past few years presents numerous opportunities for augmenting phenotypic drug screening on microfluidic platforms, leveraging its predictive capabilities, data analysis, efficient data processing, etc. Microfluidics coupled with AI is poised to revolutionize the landscape of phenotypic drug discovery. By integrating advanced microfluidic platforms with AI algorithms, researchers can rapidly screen large libraries of compounds, identify novel drug candidates, and elucidate complex biological pathways with unprecedented speed and efficiency. This review provides an overview of recent advances and challenges in AI-based microfluidics and their applications in drug discovery. We discuss the synergistic combination of microfluidic systems for high-throughput screening and AI-driven analysis for phenotype characterization, drug-target interactions, and predictive modeling. In addition, we highlight the potential of AI-powered microfluidics to achieve an automated drug screening system. Overall, AI-powered microfluidics represents a promising approach to shaping the future of phenotypic drug discovery by enabling rapid, cost-effective, and accurate identification of therapeutically relevant compounds.
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Affiliation(s)
- Junchi Liu
- Department of Anesthesiology, The First Hospital of Jilin University, 71 Xinmin Street, Changchun 130012, China
| | - Hanze Du
- Department of Endocrinology, Key Laboratory of Endocrinology of National Health Commission, Translation Medicine Centre, Peking Union Medical College Hospital, Peking Union Medical College, Chinese Academy of Medical Sciences, Beijing 100730, China
- Key Laboratory of Endocrinology of National Health Commission, Department of Endocrinology, State Key Laboratory of Complex Severe and Rare Diseases, Peking Union Medical College Hospital, Chinese Academy of Medical Science and Peking Union Medical College, Beijing 100730, China
| | - Lei Huang
- Jilin Provincial Key Laboratory of Tooth Development and Bone Remodeling, School and Hospital of Stomatology, Jilin University, 1500 Qinghua Road, Changchun 130012, China
| | - Wangni Xie
- Jilin Provincial Key Laboratory of Tooth Development and Bone Remodeling, School and Hospital of Stomatology, Jilin University, 1500 Qinghua Road, Changchun 130012, China
| | - Kexuan Liu
- Jilin Provincial Key Laboratory of Tooth Development and Bone Remodeling, School and Hospital of Stomatology, Jilin University, 1500 Qinghua Road, Changchun 130012, China
| | - Xue Zhang
- Jilin Provincial Key Laboratory of Tooth Development and Bone Remodeling, School and Hospital of Stomatology, Jilin University, 1500 Qinghua Road, Changchun 130012, China
| | - Shi Chen
- Department of Endocrinology, Key Laboratory of Endocrinology of National Health Commission, Translation Medicine Centre, Peking Union Medical College Hospital, Peking Union Medical College, Chinese Academy of Medical Sciences, Beijing 100730, China
- Key Laboratory of Endocrinology of National Health Commission, Department of Endocrinology, State Key Laboratory of Complex Severe and Rare Diseases, Peking Union Medical College Hospital, Chinese Academy of Medical Science and Peking Union Medical College, Beijing 100730, China
| | - Yuan Zhang
- Department of Anesthesiology, The First Hospital of Jilin University, 71 Xinmin Street, Changchun 130012, China
| | - Daowei Li
- Jilin Provincial Key Laboratory of Tooth Development and Bone Remodeling, School and Hospital of Stomatology, Jilin University, 1500 Qinghua Road, Changchun 130012, China
| | - Hui Pan
- Department of Endocrinology, Key Laboratory of Endocrinology of National Health Commission, Translation Medicine Centre, Peking Union Medical College Hospital, Peking Union Medical College, Chinese Academy of Medical Sciences, Beijing 100730, China
- Key Laboratory of Endocrinology of National Health Commission, Department of Endocrinology, State Key Laboratory of Complex Severe and Rare Diseases, Peking Union Medical College Hospital, Chinese Academy of Medical Science and Peking Union Medical College, Beijing 100730, China
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Zhang Y, Gao Y, Wang H, Wu H, Xia Y, Wu X. A Secure High-Order Gene Interaction Detection Algorithm Based on Deep Neural Network. IEEE/ACM TRANSACTIONS ON COMPUTATIONAL BIOLOGY AND BIOINFORMATICS 2024; 21:619-630. [PMID: 36251904 DOI: 10.1109/tcbb.2022.3214863] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/16/2023]
Abstract
Identifying high-order Single Nucleotide Polymorphism (SNP) interactions of additive genetic model is crucial for detecting complex disease gene-type and predicting pathogenic genes of various disorders. We present a novel framework for high-order gene interactions detection, not directly identifying individual site, but based on Deep Learning (DL) method with Differential Privacy (DP), termed as Deep-DPGI. Firstly, integrate loss functions including cross-entropy and focal loss function to train the model parameters that minimize the value of loss. Secondly, use the layer-wise relevance analysis method to measure relevance difference between neurons weight and outputting results. Deep-DPGI disturbs neuron weight by adaptive noising mechanism, protecting the safety of high-order gene interactions and balancing the privacy and utility. Specifically, more noise is added to gradients of neurons that is less relevance with the outputs, less noise to gradients that more relevance. Finally, Experiments on simulated and real datasets demonstrate that Deep-DPGI not only improve the power of high-order gene interactions detection in with marginal and without marginal effect of complex disease models, but also prevent the disclosure of sensitive information effectively.
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He Z, Cai Z. Quantifying the Effect of Quarantine Control and Optimizing Its Cost in COVID-19 Pandemic. IEEE/ACM TRANSACTIONS ON COMPUTATIONAL BIOLOGY AND BIOINFORMATICS 2024; 21:803-813. [PMID: 36399584 DOI: 10.1109/tcbb.2022.3215559] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/16/2023]
Abstract
The novel coronavirus has been spreading worldwide and emerged as a public health crisis. As the rapid rise of infected population count, a wide variety of stringent non-pharmaceutical interventions have been taken by cities and countries around the globe, including mobility reduction, social distancing and regional lockdown. The efficacy of these interventions is hard to quantify as individuals violate policies, travel inadvertently or deliberately, and spread the virus without themselves being infected. Furthermore, the publicly available pandemic data on infectious rates and other epidemiological data are unreliable and limited, and are even underestimated. In this paper, we intend to interpret and forecast the spreading dynamics of Covid-19 and quantify the efficacy of quarantine control adopted by Wuhan, Italy, South Korea and the United States of America, employing a hybrid model of an epidemiological model and a data-driven neural network model. Furthermore, since the Covid-19 has prompted global travel restrictions, aggravated unemployment, and influenced the global economy, which exemplify the great societal cost of interventions in the battle of halting Covid-19 spreading. We intend to develop optimal quarantine control under which the tradeoff between Covid-19 containment and the societal cost of quarantine control can be optimized. Optimal quarantine control enables communities have opportunities to catch their breath to reserve healthcare resources preemptively, while the Covid-19 spreading can be halted. Our results unequivocally indicate that governments that taken stringent interventions starting from the initial stage can efficiently halt the spreading of Covid-19; furthermore, the total societal cost of such interventions is greatly smaller.
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Zhang J, Lei Y, Wang Y, Zhou C, Sheng VS. Hierarchical Graph Capsule Networks for Molecular Function Classification With Disentangled Representations. IEEE/ACM TRANSACTIONS ON COMPUTATIONAL BIOLOGY AND BIOINFORMATICS 2024; 21:1072-1082. [PMID: 37018300 DOI: 10.1109/tcbb.2022.3233354] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/19/2023]
Abstract
In biochemistry, graph structures have been widely used for modeling compounds, proteins, functional interactions, etc. A common task that divides these graphs into different categories, known as graph classification, highly relies on the quality of the representations of graphs. With the advance in graph neural networks, message-passing-based methods are adopted to iteratively aggregate neighborhood information for better graph representations. These methods, though powerful, still suffer from some shortcomings. The first challenge is that pooling-based methods in graph neural networks may sometimes ignore the part-whole hierarchies naturally existing in graph structures. These part-whole relationships are usually valuable for many molecular function prediction tasks. The second challenge is that most existing methods do not take the heterogeneity embedded in graph representations into consideration. Disentangling the heterogeneity will increase the performance and interpretability of models. This paper proposes a graph capsule network for graph classification tasks with disentangled feature representations learned automatically by well-designed algorithms. This method is capable of, on the one hand, decomposing heterogeneous representations to more fine-grained elements, whilst on the other hand, capturing part-whole relationships using capsules. Extensive experiments performed on several public-available biochemistry datasets demonstrated the effectiveness of the proposed method, compared with nine state-of-the-art graph learning methods.
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Sun M, Zou W, Wang Z, Wang S, Sun Z. An Automated Framework for Histopathological Nucleus Segmentation With Deep Attention Integrated Networks. IEEE/ACM TRANSACTIONS ON COMPUTATIONAL BIOLOGY AND BIOINFORMATICS 2024; 21:995-1006. [PMID: 37018302 DOI: 10.1109/tcbb.2022.3233400] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/19/2023]
Abstract
Clinical management and accurate disease diagnosis are evolving from qualitative stage to the quantitative stage, particularly at the cellular level. However, the manual process of histopathological analysis is lab-intensive and time-consuming. Meanwhile, the accuracy is limited by the experience of the pathologist. Therefore, deep learning-empowered computer-aided diagnosis (CAD) is emerging as an important topic in digital pathology to streamline the standard process of automatic tissue analysis. Automated accurate nucleus segmentation can not only help pathologists make more accurate diagnosis, save time and labor, but also achieve consistent and efficient diagnosis results. However, nucleus segmentation is susceptible to staining variation, uneven nucleus intensity, background noises, and nucleus tissue differences in biopsy specimens. To solve these problems, we propose Deep Attention Integrated Networks (DAINets), which mainly built on self-attention based spatial attention module and channel attention module. In addition, we also introduce a feature fusion branch to fuse high-level representations with low-level features for multi-scale perception, and employ the mark-based watershed algorithm to refine the predicted segmentation maps. Furthermore, in the testing phase, we design Individual Color Normalization (ICN) to settle the dyeing variation problem in specimens. Quantitative evaluations on the multi-organ nucleus dataset indicate the priority of our automated nucleus segmentation framework.
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Das S, Namasudra S. A Lightweight and Anonymous Mutual Authentication Scheme for Medical Big Data in Distributed Smart Healthcare Systems. IEEE/ACM TRANSACTIONS ON COMPUTATIONAL BIOLOGY AND BIOINFORMATICS 2024; 21:1106-1116. [PMID: 37015595 DOI: 10.1109/tcbb.2022.3230053] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/19/2023]
Abstract
The rapid development of Big Data technology supports the advancement of many fields like industrial automation, smart healthcare, distributed systems, and many more. Big data is large and heterogeneous data generated from different sources, such as Internet of Things (IoT) devices, weather forecasting, traffic management systems, etc. However, in a distributed smart healthcare industry, unauthorized users or devices can illegally access healthcare Big Data, as well as control the sensor or IoT-enabled devices connected to a patient's body. They can even alter patients' healthcare Big Data by inserting false and misleading data, which may even cause death to the patient. This study presents a lightweight privacy-preserving user authentication scheme to solve the above-said problems in a distributed smart healthcare system. The proposed scheme prevents unauthorized users from getting access to the healthcare system by establishing a secure session for the authorized user. Here, the password protection mechanism allows only a legitimate user to access and modify the patient's healthcare Big Data. The security strength and effectiveness of the proposed authentication scheme is evaluated in this article, which show that it is more efficient and secure than the state-of-the-art schemes.
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Lu F, Zhang Z, Zhao S, Lin X, Zhang Z, Jin B, Gu W, Chen J, Wu X. CMM: A CNN-MLP Model for COVID-19 Lesion Segmentation and Severity Grading. IEEE/ACM TRANSACTIONS ON COMPUTATIONAL BIOLOGY AND BIOINFORMATICS 2024; 21:789-802. [PMID: 37028373 DOI: 10.1109/tcbb.2023.3253901] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/19/2023]
Abstract
In this paper, a CNN-MLP model (CMM) is proposed for COVID-19 lesion segmentation and severity grading in CT images. The CMM starts by lung segmentation using UNet, and then segmenting the lesion from the lung region using a multi-scale deep supervised UNet (MDS-UNet), finally implementing the severity grading by a multi-layer preceptor (MLP). In MDS-UNet, shape prior information is fused with the input CT image to reduce the searching space of the potential segmentation outputs. The multi-scale input compensates for the loss of edge contour information in convolution operations. In order to enhance the learning of multiscale features, the multi-scale deep supervision extracts supervision signals from different upsampling points on the network. In addition, it is empirical that the lesion which has a whiter and denser appearance tends to be more severe in the COVID-19 CT image. So, the weighted mean gray-scale value (WMG) is proposed to depict this appearance, and together with the lung and lesion area to serve as input features for the severity grading in MLP. To improve the precision of lesion segmentation, a label refinement method based on the Frangi vessel filter is also proposed. Comparative experiments on COVID-19 public datasets show that our proposed CMM achieves high accuracy on COVID-19 lesion segmentation and severity grading.
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Liu X, Feng T, Liu W, Song L, Yuan Y, Hau WK, Ser JD, Gao Z. Scale Mutualized Perception for Vessel Border Detection in Intravascular Ultrasound Images. IEEE/ACM TRANSACTIONS ON COMPUTATIONAL BIOLOGY AND BIOINFORMATICS 2024; 21:1060-1071. [PMID: 36441897 DOI: 10.1109/tcbb.2022.3224934] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/16/2023]
Abstract
Vessel border detection in IVUS images is essential for coronary disease diagnosis. It helps to obtain the clinical indices on the inner vessel morphology to indicate the stenosis. However, the existing methods suffer the challenge of scale-dependent interference. Early methods usually rely on the hand-crafted features, thus not robust to this interference. The existing deep learning methods are also ineffective to solve this challenge, because these methods aggregate multi-scale features in the top-down way. This aggregation may bring in interference from the non-adjacent scale. Besides, they only combine the features in all scales, and thus may weaken their complementary information. We propose the scale mutualized perception to solve this challenge by considering the adjacent scales mutually to preserve their complementary information. First, the adjacent small scales contain certain semantics to locate different vessel tissues. Then, they can also perceive the global context to assist the representation of the local context in the adjacent large scale, and vice versa. It helps to distinguish the objects with similar local features. Second, the adjacent large scales provide detailed information to refine the vessel boundaries. The experiments show the effectiveness of our method in 153 IVUS sequences, and its superiority to ten state-of-the-art methods.
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Djenouri Y, Belhadi A, Srivastava G, Lin JCW. A Secure Parallel Pattern Mining System for Medical Internet of Things. IEEE/ACM TRANSACTIONS ON COMPUTATIONAL BIOLOGY AND BIOINFORMATICS 2024; 21:631-643. [PMID: 37018269 DOI: 10.1109/tcbb.2022.3233803] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/19/2023]
Abstract
In this paper, a new generic parallel pattern mining framework called multi-objective Decomposition for Parallel Pattern-Mining (MD-PPM) is developed to solve challenges in the Internet of Medical Things through big data exploration. MD-PPM discovers important patterns by using decomposition and parallel mining methods to explore connectivity between medical data. First, a new technique, the multi-objective k-means algorithm, is used to aggregate medical data. A parallel pattern mining approach based on GPU and MapReduce architectures is also used to create useful patterns. To ensure complete privacy and security of the medical data, blockchain technology has been integrated throughout the system. Several tests were conducted to demonstrate the high performance of two sequential and graph pattern mining problems on large medical data and to evaluate the developed MD-PPM framework. From our results, our proposed MD-PPM has achieved strong results in terms of memory usage and computation time in terms of efficiency. Moreover, MD-PPM performs well in terms of accuracy and feasibility compared to existing models.
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Wang X, Li S, Pun CM, Guo Y, Xu F, Gao H, Lu H. A Parkinson's Auxiliary Diagnosis Algorithm Based on a Hyperparameter Optimization Method of Deep Learning. IEEE/ACM TRANSACTIONS ON COMPUTATIONAL BIOLOGY AND BIOINFORMATICS 2024; 21:912-923. [PMID: 37027659 DOI: 10.1109/tcbb.2023.3246961] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/19/2023]
Abstract
Parkinson's disease is a common mental disease in the world, especially in the middle-aged and elderly groups. Today, clinical diagnosis is the main diagnostic method of Parkinson's disease, but the diagnosis results are not ideal, especially in the early stage of the disease. In this paper, a Parkinson's auxiliary diagnosis algorithm based on a hyperparameter optimization method of deep learning is proposed for the Parkinson's diagnosis. The diagnosis system uses ResNet50 to achieve feature extraction and Parkinson's classification, mainly including speech signal processing part, algorithm improvement part based on Artificial Bee Colony algorithm (ABC) and optimizing the hyperparameters of ResNet50 part. The improved algorithm is called Gbest Dimension Artificial Bee Colony algorithm (GDABC), proposing "Range pruning strategy" which aims at narrowing the scope of search and "Dimension adjustment strategy" which is to adjust gbest dimension by dimension. The accuracy of the diagnosis system in the verification set of Mobile Device Voice Recordings at King's College London (MDVR-CKL) dataset can reach more than 96%. Compared with current Parkinson's sound diagnosis methods and other optimization algorithms, our auxiliary diagnosis system shows better classification performance on the dataset within limited time and resources.
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Zhang Y, Ye X, Wu W, Luo Y, Chen M, Du Y, Wen Y, Song H, Liu Y, Zhang G, Wang L. Morphological Rule-Constrained Object Detection of Key Structures in Infant Fundus Image. IEEE/ACM TRANSACTIONS ON COMPUTATIONAL BIOLOGY AND BIOINFORMATICS 2024; 21:1031-1041. [PMID: 37018340 DOI: 10.1109/tcbb.2023.3234100] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/19/2023]
Abstract
The detection of optic disc and macula is an essential step for ROP (Retinopathy of prematurity) zone segmentation and disease diagnosis. This paper aims to enhance deep learning-based object detection with domain-specific morphological rules. Based on the fundus morphology, we define five morphological rules, i.e., number restriction (maximum number of optic disc and macula is one), size restriction (e.g., optic disc width: 1.05 +/- 0.13 mm), distance restriction (distance between the optic disc and macula/fovea: 4.4 +/- 0.4 mm), angle/slope restriction (optic disc and macula should roughly be positioned in the same horizontal line), position restriction (In OD, the macula is on the left side of the optic disc; vice versa for OS). A case study on 2953 infant fundus images (with 2935 optic disc instances and 2892 macula instances) proves the effectiveness of the proposed method. Without the morphological rules, naïve object detection accuracies of optic disc and macula are 0.955 and 0.719, respectively. With the proposed method, false-positive ROIs (region of interest) are further ruled out, and the accuracy of the macula is raised to 0.811. The IoU (intersection over union) and RCE (relative center error) metrics are also improved .
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Xie X, Tian Y, Ota K, Dong M, Liu Z, Jin H, Yao D. Reinforced Computer-Aided Framework for Diagnosing Thyroid Cancer. IEEE/ACM TRANSACTIONS ON COMPUTATIONAL BIOLOGY AND BIOINFORMATICS 2024; 21:737-747. [PMID: 37028014 DOI: 10.1109/tcbb.2023.3251323] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/19/2023]
Abstract
Thyroid cancer is the most pervasive disease in the endocrine system and is getting extensive attention. The most prevalent method for an early check is ultrasound examination. Traditional research mainly concentrates on promoting the performance of processing a single ultrasound image using deep learning. However, the complex situation of patients and nodules often makes the model dissatisfactory in terms of accuracy and generalization. Imitating the diagnosis process in reality, a practical diagnosis-oriented computer-aided diagnosis (CAD) framework towards thyroid nodules is proposed, using collaborative deep learning and reinforcement learning. Under the framework, the deep learning model is trained collaboratively with multiparty data; afterward classification results are fused by a reinforcement learning agent to decide the final diagnosis result. Within the architecture, multiparty collaborative learning with privacy-preserving on large-scale medical data brings robustness and generalization, and diagnostic information is modeled as a Markov decision process (MDP) to get final precise diagnosis results. Moreover, the framework is scalable and capable of containing more diagnostic information and multiple sources to pursue a precise diagnosis. A practical dataset of two thousand thyroid ultrasound images is collected and labeled for collaborative training on classification tasks. The simulated experiments have shown the advancement of the framework in promising performance.
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Razzak I, Naz S, Alinejad-Rokny H, Nguyen TN, Khalifa F. A Cascaded Mutliresolution Ensemble Deep Learning Framework for Large Scale Alzheimer's Disease Detection Using Brain MRIs. IEEE/ACM TRANSACTIONS ON COMPUTATIONAL BIOLOGY AND BIOINFORMATICS 2024; 21:573-581. [PMID: 36322495 DOI: 10.1109/tcbb.2022.3219032] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/16/2023]
Abstract
Alzheimer's is progressive and irreversible type of dementia, which causes degeneration and death of cells and their connections in the brain. AD worsens over time and greatly impacts patients' life and affects their important mental functions, including thinking, the ability to carry on a conversation, and judgment and response to environment. Clinically, there is no single test to effectively diagnose Alzheimer disease. However, computed tomography (CT) and magnetic resonance imaging (MRI) scans can be used to help in AD diagnosis by observing critical changes in the size of different brain areas, typically parietal and temporal lobes areas. In this work, an integrative mulitresolutional ensemble deep learning-based framework is proposed to achieve better predictive performance for the diagnosis of Alzheimer disease. Unlike ResNet, DenseNet and their variants proposed pipeline utilizes PartialNet in a hierarchical design tailored to AD detection using brain MRIs. The advantage of the proposed analysis system is that PartialNet diversified the depth and deep supervision. Additionally, it also incorporates the properties of identity mappings which makes it powerful in better learning due to feature reuse. Besides, the proposed ensemble PartialNet is better in vanishing gradient, diminishing forward-flow with low number of parameters and better training time in comparison to its counter network. The proposed analysis pipeline has been tested and evaluated on benchmark ADNI dataset collected from 379 subjects patients. Quantitative validation of the obtained results documented our framework's capability, outperforming state-of-the-art learning approaches for both multi-and binary-class AD detection.
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Chen T, Zheng W, Hu H, Luo C, Chen J, Yuan C, Lu W, Chen DZ, Gao H, Wu J. A Corresponding Region Fusion Framework for Multi-Modal Cervical Lesion Detection. IEEE/ACM TRANSACTIONS ON COMPUTATIONAL BIOLOGY AND BIOINFORMATICS 2024; 21:959-970. [PMID: 35635817 DOI: 10.1109/tcbb.2022.3178725] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/15/2023]
Abstract
Cervical lesion detection (CLD) using colposcopic images of multi-modality (acetic and iodine) is critical to computer-aided diagnosis (CAD) systems for accurate, objective, and comprehensive cervical cancer screening. To robustly capture lesion features and conform with clinical diagnosis practice, we propose a novel corresponding region fusion network (CRFNet) for multi-modal CLD. CRFNet first extracts feature maps and generates proposals for each modality, then performs proposal shifting to obtain corresponding regions under large position shifts between modalities, and finally fuses those region features with a new corresponding channel attention to detect lesion regions on both modalities. To evaluate CRFNet, we build a large multi-modal colposcopic image dataset collected from our collaborative hospital. We show that our proposed CRFNet surpasses known single-modal and multi-modal CLD methods and achieves state-of-the-art performance, especially in terms of Average Precision.
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Li Y, Liang W, Peng L, Zhang D, Yang C, Li KC. Predicting Drug-Target Interactions Via Dual-Stream Graph Neural Network. IEEE/ACM TRANSACTIONS ON COMPUTATIONAL BIOLOGY AND BIOINFORMATICS 2024; 21:948-958. [PMID: 36074878 DOI: 10.1109/tcbb.2022.3204188] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/15/2023]
Abstract
Drug target interaction prediction is a crucial stage in drug discovery. However, brute-force search over a compound database is financially infeasible. We have witnessed the increasing measured drug-target interactions records in recent years, and the rich drug/protein-related information allows the usage of graph machine learning. Despite the advances in deep learning-enabled drug-target interaction, there are still open challenges: (1) rich and complex relationship between drugs and proteins can be explored; (2) the intermediate node is not calibrated in the heterogeneous graph. To tackle with above issues, this paper proposed a framework named DSG-DTI. Specifically, DSG-DTI has the heterogeneous graph autoencoder and heterogeneous attention network-based Matrix Completion. Our framework ensures that the known types of nodes (e.g., drug, target, side effects, diseases) are precisely embedded into high-dimensional space with our pretraining skills. Also, the attention-based heterogeneous graph-based matrix completion achieves highly competitive results via effective long-range dependencies extraction. We verify our model on two public benchmarks. The result of two publicly available benchmark application programs show that the proposed scheme effectively predicts drug-target interactions and can generalize to newly registered drugs and targets with slight performance degradation, outperforming the best accuracy compared with other baselines.
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Guo K, Chen T, Ren S, Li N, Hu M, Kang J. Federated Learning Empowered Real-Time Medical Data Processing Method for Smart Healthcare. IEEE/ACM TRANSACTIONS ON COMPUTATIONAL BIOLOGY AND BIOINFORMATICS 2024; 21:869-879. [PMID: 35737631 DOI: 10.1109/tcbb.2022.3185395] [Citation(s) in RCA: 4] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/15/2023]
Abstract
Computer-aided diagnosis (CAD) has always been an important research topic for applying artificial intelligence in smart healthcare. Sufficient medical data are one of the most critical factors in CAD research. However, medical data are usually obtained in chronological order and cannot be collected all at once, which poses difficulties for the application of deep learning technology in the medical field. The traditional batch learning method consumes considerable time and space resources for real-time medical data, and the incremental learning method often leads to catastrophic forgetting. To solve these problems, we propose a real-time medical data processing method based on federated learning. We divide the process into the model stage and the exemplar stage. In the model stage, we use the federated learning method to fuse the old and new models to mitigate the catastrophic forgetting problem of the new model. In the exemplar stage, we use the most representative exemplars selected from the old data to help the new model review the old knowledge, which further mitigates the catastrophic forgetting problem of the new model. We use this method to conduct experiments on a simulated medical real-time data stream. The experimental results show that our method can learn a disease diagnosis model from a continuous medical real-time data stream. As the amount of data increases, the performance of the disease diagnosis model continues to improve, and the catastrophic forgetting problem has been effectively mitigated. Compared with the traditional batch learning method, our method can significantly save time and space resources.
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Zeng L, Huang M, Li Y, Chen Q, Dai HN. Progressive Feature Fusion Attention Dense Network for Speckle Noise Removal in OCT Images. IEEE/ACM TRANSACTIONS ON COMPUTATIONAL BIOLOGY AND BIOINFORMATICS 2024; 21:748-756. [PMID: 36074879 DOI: 10.1109/tcbb.2022.3205217] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/15/2023]
Abstract
Although deep learning for Big Data analytics has achieved promising results in the field of optical coherence tomography (OCT) image denoising, the low recognition rate caused by complex noise distribution and a large number of redundant features is still a challenge faced by deep learning-based denoising methods. Moreover, the network with large depth will bring high computational complexity. To this end, we propose a progressive feature fusion attention dense network (PFFADN) for speckle noise removal in OCT images. We arrange densely connected dense blocks in the deep convolution network, and sequentially connect the shallow convolution feature map with the deep one extracted from each dense block to form a residual block. We add attention mechanism to the network to extract the key features and suppress the irrelevant ones. We fuse the output feature maps from all dense blocks and input them to the reconstruction output layer. We compare PFFADN with the state-of-the-art denoising algorithms on retinal OCT images. Experiments show that our method has better improvement in denoising performance.
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Wang W, Li Y, Lu K, Zhang J, Chen P, Yan K, Wang B. Medical Tumor Image Classification Based on Few-Shot Learning. IEEE/ACM TRANSACTIONS ON COMPUTATIONAL BIOLOGY AND BIOINFORMATICS 2024; 21:715-724. [PMID: 37294647 DOI: 10.1109/tcbb.2023.3282226] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/11/2023]
Abstract
As a high mortality disease, cancer seriously affects people's life and well-being. Reliance on pathologists to assess disease progression from pathological images is inaccurate and burdensome. Computer aided diagnosis (CAD) system can effectively assist diagnosis and make more credible decisions. However, a large number of labeled medical images that contribute to improve the accuracy of machine learning algorithm, especially for deep learning in CAD, are difficult to collect. Therefore, in this work, an improved few-shot learning method is proposed for medical image recognition. In addition, to make full use of the limited feature information in one or more samples, a feature fusion strategy is involved in our model. On the dataset of BreakHis and skin lesions, the experimental results show that our model achieved the classification accuracy of 91.22% and 71.20% respectively when only 10 labeled samples are given, which is superior to other state-of-the-art methods.
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Ganaie MA, Tanveer M. Ensemble Deep Random Vector Functional Link Network Using Privileged Information for Alzheimer's Disease Diagnosis. IEEE/ACM TRANSACTIONS ON COMPUTATIONAL BIOLOGY AND BIOINFORMATICS 2024; 21:534-545. [PMID: 35486562 DOI: 10.1109/tcbb.2022.3170351] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/14/2023]
Abstract
Alzheimer's disease (AD) is a progressive brain disorder. Machine learning models have been proposed for the diagnosis of AD at early stage. Recently, deep learning architectures have received quite a lot attention. Most of the deep learning architectures suffer from the issues of local minima, slow convergence and sensitivity to learning rate. To overcome these issues, non-iterative learning based deep randomized models especially random vector functional link network (RVFL) with direct links have proven to be successful. However, deep RVFL and its ensemble models are trained only on normal samples. In this paper, deep RVFL and its ensembles are enabled to incorporate privileged information, as the standard RVFL model and its deep models are unable to use privileged information. To fill this gap, we have incorporated learning using privileged information (LUPI) in deep RVFL model, and propose deep RVFL with LUPI framework (dRVFL+). Privileged information is available while training the models. As RVFL is an unstable classifier, we propose ensemble deep RVFL+ with LUPI framework (edRVFL+) which exploits the LUPI as well as the diversity among the base leaners for better classification. Unlike traditional ensemble approach wherein multiple base learners are trained, the proposed edRVFL+ model optimises a single network and generates an ensemble via optimization at different levels of random projections of the data. Both dRVFL+ and edRVFL+ efficiently utilise the privileged information which results in better generalization performance. In LUPI framework, half of the available features are used as normal features and rest as the privileged features. However, we propose a novel approach for generating the privileged information. We utilise different activation functions while processing the normal and privileged information in the proposed deep architectures. To the best of our knowledge, this is first time that a separate privileged information is generated. The proposed dRVFL+ and edRVFL+ models are employed for the diagnosis of Alzheimer's disease. Experimental results demonstrate the superiority of the proposed dRVFL+ and edRVFL+ models over baseline models. Thus, the proposed edRVFL+ model can be utilised in clinical setting for the diagnosis of AD.
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Saadat H, Shah B, Halim Z, Anwar S. Knowledge Graph-Based Convolutional Network Coupled With Sentiment Analysis Towards Enhanced Drug Recommendation. IEEE/ACM TRANSACTIONS ON COMPUTATIONAL BIOLOGY AND BIOINFORMATICS 2024; 21:983-994. [PMID: 36441898 DOI: 10.1109/tcbb.2022.3225234] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/16/2023]
Abstract
Recommending appropriate drugs to patients based on their history and symptoms is a complex real-world problem. Knowing whether a drug is useful without its consumption by a variety of people followed by proper evaluation is a challenge. Modern-day recommender systems can assist in this provided they receive large data to learn. Public reviews on various drugs are available for knowledge sharing. These reviews assist in recommending the best and most appropriate option to the user. The explicit feedback underpins the entire recommender system. This work develops a novel knowledge graph-based convolutional network for recommending drugs. The knowledge graph is coupled with sentiment analysis extracted from the public reviews on drugs to enhance drug recommendations. For each drug that has been used previously, sentiments have been analyzed to determine which one has the most effective reviews. The knowledge graph effectively captures user-item relatedness by mining its associated attributes. Experiments are performed on public benchmarks and a comparison is made with closely related state-of-the-art works. Based on the obtained results, the current work performs better than the past contributions by achieving up to 98.7% Area Under Curve (AUC) score.
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Bhavani T, VamseeKrishna P, Chakraborty C, Dwivedi P. Stress Classification and Vital Signs Forecasting for IoT-Health Monitoring. IEEE/ACM TRANSACTIONS ON COMPUTATIONAL BIOLOGY AND BIOINFORMATICS 2024; 21:652-659. [PMID: 35921342 DOI: 10.1109/tcbb.2022.3196151] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/15/2023]
Abstract
Health monitoring embedded with intelligence is the demand of the day. In this era of a large population with the emergence of a variety of diseases, the demand for healthcare facilities is high. Yet there is scarcity of medical experts, technicians for providing healthcare to the people affected with some medical problem. This article presents an Internet of Things (IoT) system architecture for health monitoring and how data analytics can be applied in the health sector. IoT is employed to integrate the sensor information, data analytics, machine intelligence and user interface to continuously track and monitor the health condition of the patient. Considering data analytics as the major part, we focused on the implementation of stress classification and forecasted the future values from the recorded data using sensors. Physiological vitals like Pulse, oxygen level percentage (SpO2), temperature, arterial blood pressure along with the patients age, height, weight and movement are considered. Various traditional and ensemble machine learning methods are applied to stress classification data. The experimental results have shown that a hypertuned random forest algorithm has given a better performance with an accuracy of 94.3%. In a view that knowing the future values in prior helps in quick decision making, critical vitals like pulse, oxygen level percentage and blood pressure have been forecasted. The data is trained with ML and neural network models. GRU model has given better performance with lower error rates of 1.76, 0.27, 5.62 RMSE values and 0.845, 0.13, 2.01 MAE values for pulse, SpO2 and blood pressure respectively.
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Malik AK, Tanveer M. Graph Embedded Ensemble Deep Randomized Network for Diagnosis of Alzheimer's Disease. IEEE/ACM TRANSACTIONS ON COMPUTATIONAL BIOLOGY AND BIOINFORMATICS 2024; 21:546-558. [PMID: 36112566 DOI: 10.1109/tcbb.2022.3202707] [Citation(s) in RCA: 5] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/15/2023]
Abstract
Randomized shallow/deep neural networks with closed form solution avoid the shortcomings that exist in the back propagation (BP) based trained neural networks. Ensemble deep random vector functional link (edRVFL) network utilize the strength of two growing fields, i.e., deep learning and ensemble learning. However, edRVFL model doesn't consider the geometrical relationship of the data while calculating the final output parameters corresponding to each layer considered as base model. In the literature, graph embedded frameworks have been successfully used to describe the geometrical relationship within data. In this paper, we propose an extended graph embedded RVFL (EGERVFL) model that, unlike standard RVFL, employs both intrinsic and penalty subspace learning (SL) criteria under the graph embedded framework in its optimization process to calculate the model's output parameters. The proposed shallow EGERVFL model has only single hidden layer and hence, has less representation learning. Therefore, we further develop an ensemble deep EGERVFL (edEGERVFL) model that can be considered a variant of edRVFL model. Unlike edRVFL, the proposed edEGERVFL model solves graph embedded based optimization problem in each layer and hence, has better generalization performance than edRVFL model. We evaluated the proposed approaches for the diagnosis of Alzheimer's disease and furthermore on UCI datasets. The experimental results demonstrate that the proposed models perform better than baseline models. The source code of the proposed models is available at https://github.com/mtanveer1/.
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Kaczmarek E, Miguel OX, Bowie AC, Ducharme R, Dingwall-Harvey ALJ, Hawken S, Armour CM, Walker MC, Dick K. CAManim: Animating end-to-end network activation maps. PLoS One 2024; 19:e0296985. [PMID: 38889117 PMCID: PMC11185468 DOI: 10.1371/journal.pone.0296985] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/09/2023] [Accepted: 12/22/2023] [Indexed: 06/20/2024] Open
Abstract
Deep neural networks have been widely adopted in numerous domains due to their high performance and accessibility to developers and application-specific end-users. Fundamental to image-based applications is the development of Convolutional Neural Networks (CNNs), which possess the ability to automatically extract features from data. However, comprehending these complex models and their learned representations, which typically comprise millions of parameters and numerous layers, remains a challenge for both developers and end-users. This challenge arises due to the absence of interpretable and transparent tools to make sense of black-box models. There exists a growing body of Explainable Artificial Intelligence (XAI) literature, including a collection of methods denoted Class Activation Maps (CAMs), that seek to demystify what representations the model learns from the data, how it informs a given prediction, and why it, at times, performs poorly in certain tasks. We propose a novel XAI visualization method denoted CAManim that seeks to simultaneously broaden and focus end-user understanding of CNN predictions by animating the CAM-based network activation maps through all layers, effectively depicting from end-to-end how a model progressively arrives at the final layer activation. Herein, we demonstrate that CAManim works with any CAM-based method and various CNN architectures. Beyond qualitative model assessments, we additionally propose a novel quantitative assessment that expands upon the Remove and Debias (ROAD) metric, pairing the qualitative end-to-end network visual explanations assessment with our novel quantitative "yellow brick ROAD" assessment (ybROAD). This builds upon prior research to address the increasing demand for interpretable, robust, and transparent model assessment methodology, ultimately improving an end-user's trust in a given model's predictions. Examples and source code can be found at: https://omni-ml.github.io/pytorch-grad-cam-anim/.
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Affiliation(s)
- Emily Kaczmarek
- Children’s Hospital of Eastern Ontario Research Institute, Ottawa, Canada
| | - Olivier X. Miguel
- Clinical Epidemiology Program, Ottawa Hospital Research Institute, Ottawa, Canada
| | - Alexa C. Bowie
- Clinical Epidemiology Program, Ottawa Hospital Research Institute, Ottawa, Canada
| | - Robin Ducharme
- Clinical Epidemiology Program, Ottawa Hospital Research Institute, Ottawa, Canada
| | - Alysha L. J. Dingwall-Harvey
- Children’s Hospital of Eastern Ontario Research Institute, Ottawa, Canada
- Clinical Epidemiology Program, Ottawa Hospital Research Institute, Ottawa, Canada
| | - Steven Hawken
- Children’s Hospital of Eastern Ontario Research Institute, Ottawa, Canada
- Clinical Epidemiology Program, Ottawa Hospital Research Institute, Ottawa, Canada
- School of Epidemiology and Public Health, University of Ottawa, Ottawa, Canada
- ICES, Toronto, Canada
| | - Christine M. Armour
- Children’s Hospital of Eastern Ontario Research Institute, Ottawa, Canada
- Department of Pediatrics, University of Ottawa, Ottawa, Canada
- Prenatal Screening Ontario, Better Outcomes Registry & Network, Ottawa, Canada
| | - Mark C. Walker
- Children’s Hospital of Eastern Ontario Research Institute, Ottawa, Canada
- Clinical Epidemiology Program, Ottawa Hospital Research Institute, Ottawa, Canada
- School of Epidemiology and Public Health, University of Ottawa, Ottawa, Canada
- ICES, Toronto, Canada
- Department of Obstetrics and Gynecology, University of Ottawa, Ottawa, Canada
- International and Global Health Office, University of Ottawa, Ottawa, Canada
- BORN Ontario, Children’s Hospital of Eastern Ontario, Ottawa, Canada
- Department of Obstetrics, Gynecology & Newborn Care, The Ottawa Hospital, Ottawa, Canada
| | - Kevin Dick
- Children’s Hospital of Eastern Ontario Research Institute, Ottawa, Canada
- Prenatal Screening Ontario, Better Outcomes Registry & Network, Ottawa, Canada
- BORN Ontario, Children’s Hospital of Eastern Ontario, Ottawa, Canada
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Chang R, Li T, Ma X. Application value of artificial intelligence algorithm-based magnetic resonance multi-sequence imaging in staging diagnosis of cervical cancer. Open Life Sci 2024; 19:20220733. [PMID: 38867922 PMCID: PMC11167709 DOI: 10.1515/biol-2022-0733] [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: 07/10/2023] [Revised: 08/11/2023] [Accepted: 08/28/2023] [Indexed: 06/14/2024] Open
Abstract
The aim of this research is to explore the application value of Deep residual network model (DRN) for deep learning-based multi-sequence magnetic resonance imaging (MRI) in the staging diagnosis of cervical cancer (CC). This research included 90 patients diagnosed with CC between August 2019 and May 2021 at the hospital. After undergoing MRI examination, the clinical staging and surgical pathological staging of patients were conducted. The research then evaluated the results of clinical staging and MRI staging to assess their diagnostic accuracy and correlation. In the staging diagnosis of CC, the feature enhancement layer was added to the DRN model, and the MRI imaging features of CC were used to enhance the image information. The precision, specificity, and sensitivity of the constructed model were analyzed, and then the accuracy of clinical diagnosis staging and MRI staging were compared. As the model constructed DRN in this research was compared with convolutional neural network (CNN) and the classic deep neural network visual geometry group (VGG), the precision was 67.7, 84.9, and 93.6%, respectively. The sensitivity was 70.4, 82.5, and 91.2%, while the specificity was 68.5, 83.8, and 92.2%, respectively. The precision, sensitivity, and specificity of the model were remarkably higher than those of CNN and VGG models (P < 0.05). As the clinical staging and MRI staging of CC were compared, the diagnostic accuracy of MRI was 100%, while that of clinical diagnosis was 83.7%, showing a significant difference between them (P < 0.05). Multi-sequence MRI under intelligent algorithm had a high diagnostic rate for CC staging, deserving a good clinical application value.
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Affiliation(s)
- Rui Chang
- Department of Obstetrics and Gynecology, The First Hospital of Yulin, Yulin, 719000, Shaanxi, China
| | - Ting Li
- Cancer Diagnosis and Treatment Center, The First Hospital of Yulin, Yulin, 719000, Shaanxi, China
| | - Xiaowei Ma
- Department of Imaging, The First Hospital of Yulin, Yulin, 719000, Shaanxi, China
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Kim HG, Shin J, Choi YH. Human-Unrecognizable Differential Private Noised Image Generation Method. SENSORS (BASEL, SWITZERLAND) 2024; 24:3166. [PMID: 38794019 PMCID: PMC11125371 DOI: 10.3390/s24103166] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/11/2024] [Revised: 04/29/2024] [Accepted: 05/07/2024] [Indexed: 05/26/2024]
Abstract
Differential privacy has emerged as a practical technique for privacy-preserving deep learning. However, recent studies on privacy attacks have demonstrated vulnerabilities in the existing differential privacy implementations for deep models. While encryption-based methods offer robust security, their computational overheads are often prohibitive. To address these challenges, we propose a novel differential privacy-based image generation method. Our approach employs two distinct noise types: one makes the image unrecognizable to humans, preserving privacy during transmission, while the other maintains features essential for machine learning analysis. This allows the deep learning service to provide accurate results, without compromising data privacy. We demonstrate the feasibility of our method on the CIFAR100 dataset, which offers a realistic complexity for evaluation.
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Affiliation(s)
| | | | - Yoon-Ho Choi
- School of Computer Science and Engineering, Pusan National University, Busan 46241, Republic of Korea; (H.-G.K.); (J.S.)
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Sharma N, Sharma M, Tailor J, Chaudhari A, Joshi D, Acharya UR. Automated detection of depression using wavelet scattering networks. Med Eng Phys 2024; 124:104107. [PMID: 38418014 DOI: 10.1016/j.medengphy.2024.104107] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/04/2023] [Revised: 12/16/2023] [Accepted: 01/09/2024] [Indexed: 03/01/2024]
Abstract
Today, depression is a common problem that affects many people all over the world. It can impact a person's mood and quality of life unless identified and treated immediately. Due to the hectic and stressful modern life seems to be, depression has become a leading cause of mental health illnesses. Signals from electroencephalograms (EEG) are frequently used to detect depression. It is difficult, time-consuming, and highly skilled to manually detect depression using EEG data analysis. Hence, in the proposed study, an automated depression detection system using EEG signals is proposed. The proposed study uses a clinically available dataset and dataset provided by the Department of Psychiatry at the Government Medical College (GMC) in Kozhikode, Kerala, India which consisted of 15 depressed patients and 15 healthy subjects and a publically available Multi-modal Open Dataset (MODMA) for Mental-disorder Analysis available at UK Data service reshare that consisted of 24 depressed patients and 29 healthy subjects. In this study, we have developed a novel Deep Wavelet Scattering Network (DWSN) for the automated detection of depression EEG signals. The best-performing classifier is then chosen by feeding the features into several machine-learning algorithms. For the clinically available GMC dataset, Medium Neural Network (MNN) achieved the highest accuracy of 99.95% with a Kappa value of 0.999. Using the suggested methods, the precision, recall, and F1-score are all 1. For the MODMA dataset, Wide Neural Network (WNN) achieved the highest accuracy of 99.3% with a Kappa value of 0.987. Using the suggested methods, the precision, recall, and F1-score are all 0.99. In comparison to all current methodologies, the performance of the suggested research is superior. The proposed method can be used to automatically diagnose depression both at home and in clinical settings.
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Affiliation(s)
- Nishant Sharma
- Department of Electrical Engineering, Institute of Infrastructure, Technology, Research and Management (IITRAM), Ahmedabad, India.
| | - Manish Sharma
- Department of Electrical Engineering, Institute of Infrastructure, Technology, Research and Management (IITRAM), Ahmedabad, India.
| | - Jimit Tailor
- Department of Electrical Engineering, Institute of Infrastructure, Technology, Research and Management (IITRAM), Ahmedabad, India.
| | - Arth Chaudhari
- Department of Electrical Engineering, Institute of Infrastructure, Technology, Research and Management (IITRAM), Ahmedabad, India.
| | - Deepak Joshi
- Centre for Biomedical Engineering, Indian Institute of Technology Delhi (IITD), Delhi, India.
| | - U Rajendra Acharya
- School of Mathematics, Physics, and Computing, University of Southern Queensland, Toowoomba 4350, Queensland, Australia.
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Li Y, Qu Q, Yue Y, Guo Y, Yi X. Evaluation of children's oral diagnosis and treatment using imaging examination using AI based Internet of Things. Technol Health Care 2024; 32:1323-1340. [PMID: 37781823 PMCID: PMC11091629 DOI: 10.3233/thc-230099] [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: 01/30/2023] [Accepted: 05/18/2023] [Indexed: 10/03/2023]
Abstract
BACKGROUND Although cone beam computed tomography (CBCT) plays an important role in the diagnosis and treatment of oral diseases, its image segmentation method needs to be further improved, and there are still objections about the clinical application effect of general anesthesia (GA) on children's dental fear (CDF). OBJECTIVE This study aimed to investigate the application value of CBCT based on intelligent computer segmentation model in oral diagnosis and treatment of children in the context of biomedical signals, and to analyze the alleviating effect of GA on CDF. METHODS Based on the regional level set (CV) algorithm, the local binary fitting (LBF) model was introduced to optimize it, and the tooth CBCT image segmentation model CV-LBF was established to compare the segmentation accuracy (SA), maximum symmetric surface distance (MSSD), average symmetric surface distance (ASSD), over segmentation rate (OR), and under segmentation rate (UR) between these model and other algorithms. 82 children with CDF were divided into general anesthesia group (GAG) (n= 38) and controls (n= 44) according to the voluntary principle of their families. Children in GAG were treated with GA and controls with protective fixed intervention. Children's fear survey schedule-dental subscale (CFSS-DS) and Venham scores were counted before intervention in the two groups. CFSS-DS scores were recorded at 2 hours after intervention and after recovery in children in GAG. CFSS-DS and Venham scores were performed in all children 1 week after surgery. RESULTS The results showed that the SA value of CV-LBF algorithm was higher than that of region growing algorithm (P< 0.05). OR, UR, MSSD, and ASSD values of CV-LBF algorithm were evidently lower than those of other algorithms (P< 0.05). CFSS-DS scores were lower in GAG than in controls 2 hours after intervention and at return visits after 1 week of intervention (P< 0.001), and Venham scores were lower in GAG than in controls after intervention (P< 0.001). After intervention, the proportion of children with Venham grade 0, 1, 2, and 3 was obviously higher in GAG than in controls (P< 0.001), while the proportion of children with Venham grade 4 and 5 was clearly higher in controls than in GAG (P< 0.001). CONCLUSION The results revealed that the computer intelligent segmentation model CV-LBF has potential application value in CBCT image segmentation of children's teeth, and GA can effectively alleviate anxiety of children with CDF and can be used as biomedical signals.
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Affiliation(s)
- Yan Li
- Department of Anesthesiology, Yantai Mountain Hospital, Yantai, Shandong, China
| | - Qizhi Qu
- CT/MR Division, Liaocheng Third People’s Hospital, Liaocheng, Shandong, China
| | - Yuxue Yue
- CT/MR Division, Liaocheng Third People’s Hospital, Liaocheng, Shandong, China
| | - Yuxuan Guo
- Department of Stomatology, Affiliated Hospital of Northwest University/Xi’an Third Hospital, Xi’an, Shaanxi, China
| | - Xiuna Yi
- Department of Anesthesiology, Yantai Mountain Hospital, Yantai, Shandong, China
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Yang Y, Liu S, Lei P, Huang Z, Liu L, Tan Y. Assessing usability of intelligent guidance chatbots in Chinese hospitals: Cross-sectional study. Digit Health 2024; 10:20552076241260504. [PMID: 38854920 PMCID: PMC11159538 DOI: 10.1177/20552076241260504] [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] [Accepted: 05/23/2024] [Indexed: 06/11/2024] Open
Abstract
Objective This study aimed to assessing usability of intelligent guidance chatbots (IGCs) in Chinese hospitals. Methods A cross-sectional study based on expert survey was conducted between August to December 2023. The survey assessed the usability of chatbots in 590 Chinese hospitals. One-way ANOVA was used to analyze the impact of the number of functions, human-like characteristics, number of outpatients, and staff size on the usability of the IGCs. Results The results indicate that there are 273 (46.27%) hospitals scoring above 45 points. In terms of function development, 581(98.47%) hospitals have set the number of functions between 1 and 5. Besides, 350 hospitals have excellent function implementation, accounting for 59.32%. In terms of the IGC's human-like characteristic, 220 hospitals have both an avatar and a nickname. Results of One-way ANOVA show that, the number of functions(F = 202.667, P < 0.001), human-like characteristics(F = 372.29, P < 0.001), staff size(F = 9.846, P < 0.001), and the number of outpatients(F = 5.709, P = 0.004) have significant impact on the usability of hospital IGCs. Conclusions This study found that the differences in the usability of hospital IGCs at various levels of the number of functions, human-like characteristics, number of outpatients, and staff size. These findings provide insights for deploying hospital IGCs and can inform improvements in patient's experience and adoption of chatbots.
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Affiliation(s)
- Yanni Yang
- School of Literature and Media, China Three Gorges University, Yichang, Hubei, China
| | - Siyang Liu
- School of Literature and Media, China Three Gorges University, Yichang, Hubei, China
| | - Ping Lei
- Department of Orthopedics, Zhijiang Hospital of Traditional Chinese Medicine, Zhijiang, Hubei, China
| | - Zhengwei Huang
- College of Economics & Management, China Three Gorges University, Yichang, Hubei, China
| | - Lu Liu
- College of Electrical Engineering & New Energy, China Three Gorges University, Yichang, Hubei, China
| | - Yiting Tan
- School of Literature and Media, China Three Gorges University, Yichang, Hubei, China
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Pilcevic D, Djuric Jovicic M, Antonijevic M, Bacanin N, Jovanovic L, Zivkovic M, Dragovic M, Bisevac P. Performance evaluation of metaheuristics-tuned recurrent neural networks for electroencephalography anomaly detection. Front Physiol 2023; 14:1267011. [PMID: 38033337 PMCID: PMC10682794 DOI: 10.3389/fphys.2023.1267011] [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: 07/27/2023] [Accepted: 10/26/2023] [Indexed: 12/02/2023] Open
Abstract
Electroencephalography (EEG) serves as a diagnostic technique for measuring brain waves and brain activity. Despite its precision in capturing brain electrical activity, certain factors like environmental influences during the test can affect the objectivity and accuracy of EEG interpretations. Challenges associated with interpretation, even with advanced techniques to minimize artifact influences, can significantly impact the accurate interpretation of EEG findings. To address this issue, artificial intelligence (AI) has been utilized in this study to analyze anomalies in EEG signals for epilepsy detection. Recurrent neural networks (RNNs) are AI techniques specifically designed to handle sequential data, making them well-suited for precise time-series tasks. While AI methods, including RNNs and artificial neural networks (ANNs), hold great promise, their effectiveness heavily relies on the initial values assigned to hyperparameters, which are crucial for their performance for concrete assignment. To tune RNN performance, the selection of hyperparameters is approached as a typical optimization problem, and metaheuristic algorithms are employed to further enhance the process. The modified hybrid sine cosine algorithm has been developed and used to further improve hyperparameter optimization. To facilitate testing, publicly available real-world EEG data is utilized. A dataset is constructed using captured data from healthy and archived data from patients confirmed to be affected by epilepsy, as well as data captured during an active seizure. Two experiments have been conducted using generated dataset. In the first experiment, models were tasked with the detection of anomalous EEG activity. The second experiment required models to segment normal, anomalous activity as well as detect occurrences of seizures from EEG data. Considering the modest sample size (one second of data, 158 data points) used for classification models demonstrated decent outcomes. Obtained outcomes are compared with those generated by other cutting-edge metaheuristics and rigid statistical validation, as well as results' interpretation is performed.
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Affiliation(s)
- Dejan Pilcevic
- Clinic for Nephrology, Military Medical Academy, University of Defense, Belgrade, Serbia
| | | | - Milos Antonijevic
- Department of Informatics and Computing, Singidunum University, Belgrade, Serbia
| | - Nebojsa Bacanin
- Department of Informatics and Computing, Singidunum University, Belgrade, Serbia
| | - Luka Jovanovic
- Department of Informatics and Computing, Singidunum University, Belgrade, Serbia
| | - Miodrag Zivkovic
- Department of Informatics and Computing, Singidunum University, Belgrade, Serbia
| | | | - Petar Bisevac
- Department of Informatics and Computing, Singidunum University, Belgrade, Serbia
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Huang X, Jiang R, Peng S, Wei Y, Hu X, Chen J, Lian W. Evaluation of brain nerve function in ICU patients with Delirium by deep learning algorithm-based resting state MRI. Open Life Sci 2023; 18:20220725. [PMID: 37941782 PMCID: PMC10628570 DOI: 10.1515/biol-2022-0725] [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: 07/12/2023] [Revised: 08/10/2023] [Accepted: 08/19/2023] [Indexed: 11/10/2023] Open
Abstract
The purpose of this study was to explore the value of resting-state magnetic resonance imaging (MRI) based on the brain extraction tool (BET) algorithm in evaluating the cranial nerve function of patients with delirium in intensive care unit (ICU). A total of 100 patients with delirium in hospital were studied, and 20 healthy volunteers were used as control. All the subjects were examined by MRI, and the images were analyzed by the BET algorithm, and the convolution neural network (CNN) algorithm was introduced for comparison. The application effects of the two algorithms were analyzed, and the differences of brain nerve function between delirium patients and normal people were explored. The results showed that the root mean square error, high frequency error norm, and structural similarity of the BET algorithm were 70.4%, 71.5%, and 0.92, respectively, which were significantly higher than those of the CNN algorithm (P < 0.05). Compared with normal people, the ReHo values of pontine, hippocampus (right), cerebellum (left), midbrain, and basal ganglia in delirium patients were significantly higher. ReHo values of frontal gyrus, middle frontal gyrus, left inferior frontal gyrus, parietal lobe, and temporal lobe and anisotropy scores (FA) of cerebellums (left), frontal lobe, temporal lobe (left), corpus callosum, and hippocampus (left) decreased significantly. The average diffusivity (MD) of medial frontal lobe, superior temporal gyrus (right), the first half of cingulate gyrus, bilateral insula, and caudate nucleus (left) increased significantly (P < 0.05). MRI based on the deep learning algorithm can effectively improve the image quality, which is valuable in evaluating the brain nerve function of delirium patients. Abnormal brain structure damage and abnormal function can be used to help diagnose delirium.
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Affiliation(s)
- Xiaocheng Huang
- Department of Respiratory and Critical Care Medicine, Lishui Second People’s Hospital, Lishui, 323000, Zhejiang, China
| | - Ruilai Jiang
- Department of Respiratory and Critical Care Medicine, Lishui Second People’s Hospital, Lishui, 323000, Zhejiang, China
| | - Shushan Peng
- Department of Psychiatry, Lishui Second People’s Hospital, Lishui, 323000, Zhejiang, China
| | - Yanbin Wei
- Department of Respiratory and Critical Care Medicine, Lishui Second People’s Hospital, Lishui, 323000, Zhejiang, China
| | - Xiaogang Hu
- Department of Respiratory and Critical Care Medicine, Lishui Second People’s Hospital, Lishui, 323000, Zhejiang, China
| | - Jian Chen
- Department of Psychiatry, Lishui Second People’s Hospital, Lishui, 323000, Zhejiang, China
| | - Weibin Lian
- Department of Psychiatry, Lishui Second People’s Hospital, Lishui, 323000, Zhejiang, China
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Chen Y, Sun X, Sui X, Li Y, Wang Z. Application of bone alkaline phosphatase and 25-oxhydryl-vitamin D in diagnosis and prediction of osteoporotic vertebral compression fractures. J Orthop Surg Res 2023; 18:739. [PMID: 37775805 PMCID: PMC10543335 DOI: 10.1186/s13018-023-04144-2] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 06/26/2023] [Accepted: 08/28/2023] [Indexed: 10/01/2023] Open
Abstract
BACKGROUND Osteoporosis is a bone metabolic disease that usually causes fracture. The improvement of the clinical diagnostic efficiency of osteoporosis is of great significance for the prevention of fracture. The predictive and diagnostic values of bone alkaline phosphatase (B-ALP) and 25-oxhydryl-vitamin D (25-OH-VD) for osteoporotic vertebral compression fractures (OVCFs) were evaluated. METHODS 110 OVCFs patients undergoing percutaneous vertebroplasty were included as subjects and their spinal computed tomography (CT) images were collected. After that, deep convolutional neural network model was employed for intelligent fracture recognition. Next, the patients were randomly enrolled into Ctrl group (65 cases receiving postoperative routine treatment) and VD2 group (65 cases injected with vitamin D2 into muscle after the surgery). In addition, 100 healthy people who participated in physical examination were included in Normal group. The differences in Oswestry dysfunction indexes (ODI), imaging parameters, B-ALP and 25-OH-VD expressions, and quality of life (QOL) scores of patients among the three groups were compared. The values of B-ALP and 25-OH-VD in predicting and diagnosing OVCFs and their correlation with bone density were analyzed. RESULTS It was demonstrated that computer intelligent medical image technique was more efficient in fracture CT recognition than artificial recognition. In contrast to those among patients in Normal group, B-ALP rose while 25-OH-VD declined among patients in Ctrl and VD2 groups (P < 0.05). Versus those among patients in Ctrl group, ODI, Cobb angle, and B-ALP reduced, while bone density, the height ratio of the injured vertebrae, 25-OH-VD, and QOL score increased among patients in VD2 group after the treatment (P < 0.05). The critical values, accuracy, and areas under the curve (AUC) of the diagnosis of OVCFs by B-ALP and 25-OH-VD amounted to 87.8 μg/L versus 30.3 nmol/L, 86.7% versus 83.3%, and 0.86 versus 0.82, respectively. B-ALP was apparently negatively correlated with bone density (r = - 0.602, P < 0.05), while 25-OH-VD was remarkably positively correlated with bone density (r = 0.576, P < 0.05). CONCLUSION To sum up, deep learning-based computer CT image intelligent detection technique could improve the diagnostic efficacy of fracture. B-ALP rose while 25-OH-VD declined among patients with OVCFs and OVCFs could be predicted and diagnosed based on B-ALP and 25-OH-VD. Postoperative intramuscular injection of VD2 could effectively improve the therapeutic effect on patients with OVCFs and QOL.
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Affiliation(s)
- Yuelin Chen
- Spinal Surgery, Zibo First Hospital, Zibo, 255200, Shandong, China
| | - Xiaolin Sun
- Clinical Laboratory, Zibo First Hospital, Zibo, 255200, Shandong, China
| | - Xiaofei Sui
- Orthopedics and Traumatology Department II, Penglai Traditional Chinese Medicine Hospital, Yantai, 265600, Shandong, China
| | - Yan Li
- Nursing, Penglai Traditional Chinese Medicine Hospital, Yantai, 265600, Shandong, China
| | - Zhen Wang
- Spinal Surgery, Tai'an Central Hospital Affiliated to Qingdao University, Taian, 271000, Shandong, China.
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Ming M, Lu N, Qian W. Evaluation of computed tomography images under deep learning in the diagnosis of severe pulmonary infection. Front Comput Neurosci 2023; 17:1115167. [PMID: 37602316 PMCID: PMC10436326 DOI: 10.3389/fncom.2023.1115167] [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: 12/03/2022] [Accepted: 07/11/2023] [Indexed: 08/22/2023] Open
Abstract
This work aimed to explore the diagnostic value of a deep convolutional neural network (CNN) combined with computed tomography (CT) images in patients with severe pneumonia complicated with pulmonary infection. A total of 120 patients with severe pneumonia complicated by pulmonary infection admitted to the hospital were selected as research subjects and underwent CT imaging scans. The empty convolution (EC) and U-net phase were combined to construct an EC-U-net, which was applied to process the CT images. The results showed that the learning rate of the EC-U-net model decreased substantially with increasing training times until it stabilized and reached zero after 40 training times. The segmentation result of the EC-U-net model for the CT image was very similar to that of the mask image, except for some deviations in edge segmentation. The EC-U-net model exhibited a significantly smaller cross-entropy loss function (CELF) and a higher Dice coefficient than the CNN algorithm. The diagnostic accuracy of CT images based on the EC-U-net model for severe pneumonia complicated with pulmonary infection was substantially higher than that of CT images alone, while the false negative rate (FNR) and false positive rate (FPR) were substantially lower (P < 0.05). Moreover, the true positive rates (TPRs) of CT images based on the EC-U-net model for patchy high-density shadows, diffuse ground glass density shadows, pleural effusion, and lung consolidation were obviously higher than those of the original CT images (P < 0.05). In short, the EC-U-net model was superior to the traditional algorithm regarding the overall performance of CT image segmentation, which can be clinically applied. CT images based on the EC-U-net model can clearly display pulmonary infection lesions, improve the clinical diagnosis of severe pneumonia complicated with pulmonary infection, and help to screen early pulmonary infection and carry out symptomatic treatment.
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Affiliation(s)
- Mao Ming
- Department of Infectious Disease, South of Guang’anmen Hospital, China Academy of Chinese Medical Sciences, Beijing, China
| | - Na Lu
- Department of Colorectal Surgery, South of Guang’anmen Hospital, China Academy of Chinese Medical Sciences, Beijing, China
| | - Wei Qian
- Department of Intensive Care Unit, South of Guang’anmen Hospital, China Academy of Chinese Medical Sciences, Beijing, China
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45
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Liu R. Development of a travel recommendation algorithm based on multi-modal and multi-vector data mining. PeerJ Comput Sci 2023; 9:e1436. [PMID: 37547392 PMCID: PMC10403186 DOI: 10.7717/peerj-cs.1436] [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: 04/20/2023] [Accepted: 05/22/2023] [Indexed: 08/08/2023]
Abstract
Given the rise of the tourism industry, there is an increasing urgency among tourists to access information about various tourist attractions. To address this challenge, innovative solutions have emerged, utilizing recommendation algorithms to offer customers personalized product recommendations. Nonetheless, existing recommendation algorithms predominantly rely on textual data, which is insufficient to harness the full potential of online tourism data. The most valuable tourism information is often found in the multi-modal data on social media, characterized by its voluminous and content-rich nature. Against this backdrop, our article posits a groundbreaking travel recommendation algorithm that leverages multi-modal data mining techniques. The proposed algorithm uses a travel recommendation platform, designed using multi-vector word sense segmentation and multi-modal data fusion, to improve the recommendation performance by introducing topic words. In our final experimental comparison, we verify the recommendation performance of the proposed algorithm on the real data set of TripAdvisor. Our proposed algorithm has the best degree of confusion with various topics. With a LOP of 20, the Precision and MAP values reach 0.0026 and 0.0089, respectively. It has the potential to better serve the tourism industry in terms of tourist destination recommendations. It can effectively mine the multi-modal data of the tourism industry to generate more excellent economic and social value.
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Li X, Yu H, Li F, He Y, Xu L, Xiao J. Evaluation of effects of small-incision approach treatment on proximal tibia fracture by deep learning algorithm-based magnetic resonance imaging. Open Life Sci 2023; 18:20220624. [PMID: 37426618 PMCID: PMC10329276 DOI: 10.1515/biol-2022-0624] [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: 02/25/2023] [Revised: 04/26/2023] [Accepted: 05/08/2023] [Indexed: 07/11/2023] Open
Abstract
In this study, magnetic resonance imaging (MRI) based on a deep learning algorithm was used to evaluate the clinical effect of the small-incision approach in treating proximal tibial fractures. Super-resolution reconstruction (SRR) algorithm was used to reconstruct MRI images for analysis and comparison. The research objects were 40 patients with proximal tibial fractures. According to the random number method, patients were divided into a small-incision approach group (22 cases) and an ordinary approach group (18 cases). The peak signal-to-noise ratio (PSNR) and the structural similarity index (SSIM) of the MRI images before and after the reconstruction of the two groups were analyzed. The operative time, intraoperative blood loss, complete weight-bearing time, complete healing time, knee range of motion, and knee function of the two treatments were compared. The results showed that after SRR, the PSNR and SSIM of MRI images were 35.28 and 0.826 dB, respectively, so the MRI image display effect was better. The operation time in the small-incision approach group was 84.93 min, which was significantly shorter than that in the common approach group, and the intraoperative blood loss was 219.95 mL, which was significantly shorter than that in the common approach group (P < 0.05). The complete weight-bearing time and complete healing time in the small-incision approach group were 14.75 and 16.79 weeks, respectively, which were significantly shorter than those in the ordinary approach group (P < 0.05). The half-year knee range of motion and 1-year knee range of motion in the small-incision approach group were 118.27° and 128.72°, respectively, which were significantly higher than those in the conventional approach group (P < 0.05). After 6 months of treatment, the rate of good treatment was 86.36% in the small-incision approach group and 77.78% in the ordinary approach group. After 1 year of treatment, the rate of excellent and good treatment was 90.91% in the small-incision approach group and 83.33% in the ordinary approach group. The rate of good treatment for half a year and 1 year in the small incision group was significantly higher than that in the common approach group (P < 0.05). In conclusion, MRI image based on deep learning algorithm has a high resolution, good display effect, and high application value. The small-incision approach can be applied to the treatment of proximal tibial fractures, which showed good therapeutic effects and a high positive clinical application value.
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Affiliation(s)
- Xisheng Li
- Department of Orthopedics, The Second Affiliated Hospital (Jiande Branch), Zhejiang University School of Medicine, Jiande, Hangzhou, 311600 Zhejiang, China
| | - Huiling Yu
- Department of Orthopedics, The Second Affiliated Hospital (Jiande Branch), Zhejiang University School of Medicine, Jiande, Hangzhou, 311600 Zhejiang, China
| | - Fang Li
- Department of Orthopedics, The Second Affiliated Hospital (Jiande Branch), Zhejiang University School of Medicine, Jiande, Hangzhou, 311600 Zhejiang, China
| | - Yaping He
- Department of Orthopedics, The Second Affiliated Hospital (Jiande Branch), Zhejiang University School of Medicine, Jiande, Hangzhou, 311600 Zhejiang, China
| | - Liming Xu
- Department of Orthopedics, The Second Affiliated Hospital (Jiande Branch), Zhejiang University School of Medicine, Jiande, Hangzhou, 311600 Zhejiang, China
| | - Jie Xiao
- Department of Orthopedics, The Second Affiliated Hospital (Jiande Branch), Zhejiang University School of Medicine, Jiande, Hangzhou, 311600 Zhejiang, China
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Ren S, Guo K, Zhou X, Hu B, Zhu F, Luo E. Medical Image Super-Resolution Based on Semantic Perception Transfer Learning. IEEE/ACM TRANSACTIONS ON COMPUTATIONAL BIOLOGY AND BIOINFORMATICS 2023; 20:2598-2609. [PMID: 36201418 DOI: 10.1109/tcbb.2022.3212343] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/16/2023]
Abstract
Medical images are an important basis for doctors to diagnose diseases, but some medical images have low resolution due to hardware technology and cost constraints. Super-resolution technology can reconstruct low-resolution medical images into high-resolution images and enhance the quality of low-resolution images, thus assisting doctors in diagnosing diseases. However, traditional super-resolution methods mainly learn the mapping relationships among modal pixels from low resolution to high resolution, lacking the learning of high-level semantic features, resulting in a lack of understanding and utilization of semantic information, such as reconstructed objects, object attributes, and spatial relationships between two objects. In this paper, we propose a medical image super-resolution method based on semantic perception transfer learning. First, we propose a novel semantic perception super-resolution method that empowers super-resolution models to perceive high-level semantics by transferring features of the image description generation network in natural language processing. Second, we construct a semantic feature extraction network and an image description generation network and comprehensively utilized image and text modal data to learn transferable, high-level semantic features. Third, we train an end-to-end, semantic perception super-resolution model by fusing dynamic perceptual convolution, a semantic extraction network, and distillation polarization self-attention. Experiments show that semantic perception transfer learning can effectively improve the quality of super-resolution reconstruction.
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Qayyum A, Razzak I, Tanveer M, Mazher M, Alhaqbani B. High-Density Electroencephalography and Speech Signal Based Deep Framework for Clinical Depression Diagnosis. IEEE/ACM TRANSACTIONS ON COMPUTATIONAL BIOLOGY AND BIOINFORMATICS 2023; 20:2587-2597. [PMID: 37028339 DOI: 10.1109/tcbb.2023.3257175] [Citation(s) in RCA: 7] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/19/2023]
Abstract
Depression is a mental disorder characterized by persistent depressed mood or loss of interest in performing activities, causing significant impairment in daily routine. Possible causes include psychological, biological, and social sources of distress. Clinical depression is the more-severe form of depression, also known as major depression or major depressive disorder. Recently, electroencephalography and speech signals have been used for early diagnosis of depression; however, they focus on moderate or severe depression. We have combined audio spectrogram and multiple frequencies of EEG signals to improve diagnostic performance. To do so, we have fused different levels of speech and EEG features to generate descriptive features and applied vision transformers and various pre-trained networks on the speech and EEG spectrum. We have conducted extensive experiments on Multimodal Open Dataset for Mental-disorder Analysis (MODMA) dataset, which showed significant improvement in performance in depression diagnosis (0.972, 0.973 and 0.973 precision, recall and F1 score respectively) for patients at the mild stage. Besides, we provided a web-based framework using Flask and provided the source code publicly.1.
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Shen Y, Liu B, Xia X, Qi L, Xu X, Dou W. A game theory-based COVID-19 close contact detecting method with edge computing collaboration. COMPUTER COMMUNICATIONS 2023; 207:36-45. [PMID: 37234362 PMCID: PMC10198137 DOI: 10.1016/j.comcom.2023.04.029] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 12/31/2022] [Revised: 03/09/2023] [Accepted: 04/22/2023] [Indexed: 05/27/2023]
Abstract
People all throughout the world have suffered from the COVID-19 pandemic. People can be infected after brief contact, so how to assess the risk of infection for everyone effectively is a tricky challenge. In view of this challenge, the combination of wireless networks with edge computing provides new possibilities for solving the COVID-19 prevention problem. With this observation, this paper proposed a game theory-based COVID-19 close contact detecting method with edge computing collaboration, named GCDM. The GCDM method is an efficient method for detecting COVID-19 close contact infection with users' location information. With the help of edge computing's feature, the GCDM can deal with the detecting requirements of computing and storage and relieve the user privacy problem. Technically, as the game reaches equilibrium, the GCDM method can maximize close contact detection completion rate while minimizing the latency and cost of the evaluation process in a decentralized manner. The GCDM is described in detail and the performance of GCDM is analyzed theoretically. Extensive experiments were conducted and experimental results demonstrate the superior performance of GCDM over other three representative methods through comprehensive analysis.
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Affiliation(s)
- Yue Shen
- State Key Laboratory for Novel Software Technology, Nanjing University, China
- Guangdong Laboratory of Artificia Intelligence and Digita Economy(SZ), Shenzhen, China
| | - Bowen Liu
- State Key Laboratory for Novel Software Technology, Nanjing University, China
| | - Xiaoyu Xia
- School of Computing Technologies, RMIT University, Melbourne, Australia
| | - Lianyong Qi
- College of Computer and Software, China University of Petroleum (East China), China
| | - Xiaolong Xu
- School of Computer and Software, Nanjing University of Information Science and Technology, Nanjing, China
| | - Wanchun Dou
- State Key Laboratory for Novel Software Technology, Nanjing University, China
- Guangdong Laboratory of Artificia Intelligence and Digita Economy(SZ), Shenzhen, China
- College of Big Data and Intelligent Engineering, Southwest Forestry University, Kunming, China
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50
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Yan K, Guo X, Ji Z, Zhou X. Deep Transfer Learning for Cross-Species Plant Disease Diagnosis Adapting Mixed Subdomains. IEEE/ACM TRANSACTIONS ON COMPUTATIONAL BIOLOGY AND BIOINFORMATICS 2023; 20:2555-2564. [PMID: 34914593 DOI: 10.1109/tcbb.2021.3135882] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/14/2023]
Abstract
A deep transfer learning framework adapting mixed subdomains is proposed for cross-species plant disease diagnosis. Most existing deep transfer learning studies focus on knowledge transfer between highly correlated domains. These methods may fail to deal with domains that are poorly correlated. In this study, mixed domain images were generated from source and target image groups for improving the correlation between the mixed domain (training dataset) and the target domain (testing dataset). A subdomain alignment mechanism is employed to transfer knowledge from the mixed domain to the target domain. The proposed framework captures the fine-grained information more effectively. Extensive experiments were conducted and prove that the proposed method produces a more effective result compared with existing deep transfer learning technologies for poorly related subdomains.
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