Health Information Science and Systems最新文献

{"title":"Efficient novel network and index for alcoholism detection from EEGs.","authors":"Muhammad Tariq Sadiq, Siuly Siuly, Ahmad Almogren, Yan Li, Paul Wen","doi":"10.1007/s13755-023-00227-w","DOIUrl":"10.1007/s13755-023-00227-w","url":null,"abstract":"<p><strong>Background: </strong>Alcoholism is a catastrophic condition that causes brain damage as well as neurological, social, and behavioral difficulties.</p><p><strong>Limitations: </strong>This illness is often assessed using the Cut down, Annoyed, Guilty, and Eye-opener examination technique, which assesses the intensity of an alcohol problem. This technique is protracted, arduous, error-prone, and errant.</p><p><strong>Method: </strong>As a result, the intention of this paper is to design a cutting-edge system for automatically identifying alcoholism utilizing electroencephalography (EEG) signals, that can alleviate these problems and aid practitioners and investigators. First, we investigate the feasibility of using the Fast Walsh-Hadamard transform of EEG signals to explore the unpredictable essence and variability of EEG indicators in the suggested framework. Second, thirty-six linear and nonlinear features for deciphering the dynamic pattern of healthy and alcoholic EEG signals are discovered. Subsequently, we suggested a strategy for selecting powerful features. Finally, nineteen machine learning algorithms and five neural network classifiers are used to assess the overall performance of selected attributes.</p><p><strong>Results: </strong>The extensive experiments show that the suggested method provides the best classification efficiency, with 97.5% accuracy, 96.7% sensitivity, and 98.3% specificity for the features chosen using the correlation-based FS approach with Recurrent Neural Networks. With recently introduced matrix determinant features, a classification accuracy of 93.3% is also attained. Moreover, we developed a novel index that uses clinically meaningful features to differentiate between healthy and alcoholic categories with a unique integer. This index can assist health care workers, commercial companies, and design engineers in developing a real-time system with 100% classification results for the computerized framework.</p>","PeriodicalId":46312,"journal":{"name":"Health Information Science and Systems","volume":"11 1","pages":"27"},"PeriodicalIF":4.7,"publicationDate":"2023-06-17","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10276798/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"9668690","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Meta semi-supervised medical image segmentation with label hierarchy.","authors":"Hai Xu, Hongtao Xie, Qingfeng Tan, Yongdong Zhang","doi":"10.1007/s13755-023-00222-1","DOIUrl":"10.1007/s13755-023-00222-1","url":null,"abstract":"<p><p>Semi-supervised learning (SSL) has attracted increasing attention in medical image segmentation, where the mainstream usually explores perturbation-based consistency as a regularization to leverage unlabelled data. However, unlike directly optimizing segmentation task objectives, consistency regularization is a compromise by incorporating invariance towards perturbations, and inevitably suffers from noise in self-predicted targets. The above issues result in a knowledge gap between supervised guidance and unsupervised regularization. To bridge the knowledge gap, this work proposes a meta-based semi-supervised segmentation framework with the exploitation of label hierarchy. Two main prominent components named <i>Divide and Generalize</i>, and <i>Label Hierarchy</i>, are built in this work. Concretely, rather than merging all knowledge indiscriminately, we dynamically divide consistency regularization from supervised guidance as different domains. Then, a domain generalization technique is introduced with a meta-based optimization objective which ensures the update on supervised guidance should generalize to the consistency regularization, thereby bridging the knowledge gap. Furthermore, to alleviate the negative impact of noise in self-predicted targets, we propose to distill the noisy pixel-level consistency by exploiting label hierarchy and extracting hierarchical consistencies. Comprehensive experiments on two public medical segmentation benchmarks demonstrate the superiority of our framework to other semi-supervised segmentation methods, with new state-of-the-art results.</p>","PeriodicalId":46312,"journal":{"name":"Health Information Science and Systems","volume":"11 1","pages":"26"},"PeriodicalIF":4.7,"publicationDate":"2023-06-14","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10267083/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"10029930","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"STSNet: a novel spatio-temporal-spectral network for subject-independent EEG-based emotion recognition.","authors":"Rui Li, Chao Ren, Sipo Zhang, Yikun Yang, Qiqi Zhao, Kechen Hou, Wenjie Yuan, Xiaowei Zhang, Bin Hu","doi":"10.1007/s13755-023-00226-x","DOIUrl":"10.1007/s13755-023-00226-x","url":null,"abstract":"<p><p>How to use the characteristics of EEG signals to obtain more complementary and discriminative data representation is an issue in EEG-based emotion recognition. Many studies have tried spatio-temporal or spatio-spectral feature fusion to obtain higher-level representations of EEG data. However, these studies ignored the complementarity between spatial, temporal and spectral domains of EEG signals, thus limiting the classification ability of models. This study proposed an end-to-end network based on ManifoldNet and BiLSTM networks, named STSNet. The STSNet first constructed a 4-D spatio-temporal-spectral data representation and a spatio-temporal data representation based on EEG signals in manifold space. After that, they were fed into the ManifoldNet network and the BiLSTM network respectively to calculate higher-level features and achieve spatio-temporal-spectral feature fusion. Finally, extensive comparative experiments were performed on two public datasets, DEAP and DREAMER, using the subject-independent leave-one-subject-out cross-validation strategy. On the DEAP dataset, the average accuracy of the valence and arousal are 69.38% and 71.88%, respectively; on the DREAMER dataset, the average accuracy of the valence and arousal are 78.26% and 82.37%, respectively. Experimental results show that the STSNet model has good emotion recognition performance.</p>","PeriodicalId":46312,"journal":{"name":"Health Information Science and Systems","volume":"11 1","pages":"25"},"PeriodicalIF":4.7,"publicationDate":"2023-05-30","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10229500/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"9559171","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"HTC-Net: Hashimoto's thyroiditis ultrasound image classification model based on residual network reinforced by channel attention mechanism.","authors":"Zhipeng Liang, Kang Chen, Tianchun Luo, Wenchao Jiang, Jianxuan Wen, Ling Zhao, Wei Song","doi":"10.1007/s13755-023-00225-y","DOIUrl":"10.1007/s13755-023-00225-y","url":null,"abstract":"<p><p>Convolutional neural network (CNN) is efficient in extracting and aggregating local features in the spatial dimension of the images. However, obtaining the inapparent texture information of the low-echo area in the ultrasound images is not easy, and it is especially challenging for the early lesion recognition in Hashimoto's thyroiditis (HT) ultrasound images. In this paper, a HT ultrasound image classification model HTC-Net based on residual network reinforced by channel attention mechanism is proposed. HTC-Net strengthens the features of the important channels by reinforced channel attention mechanism through which the high-level semantic information is enchanced and the low-level semantic information is suppressed. Residual network assists HTC-Net focus on the key local areas of the ultrasound images while pay attention to the global semantic information. Furthermore, in order to solve the problem of uneven distribution caused by large amount of difficult-to-classify samples in the data sets, a new feature loss function TanCELoss with weight factor dynamically adjusting is constructed. TanCELoss function can better assist HTC-Net to transform difficult-to-classify samples into easy-to-classify samples gradually, and improve the balancing distribution of the samples. The experiments are implemented based on data sets collected by the Endocrinology Department of four branches from Guangdong Provincial Hospital of Chinese Medicine. Both quantitative testing and visualization results show that HTC-Net obtains STOA performance for early lesions recognition in HT ultrasound images. HTC-Net has great application value especially under the condition of owning only small data samples.</p>","PeriodicalId":46312,"journal":{"name":"Health Information Science and Systems","volume":"11 1","pages":"24"},"PeriodicalIF":4.7,"publicationDate":"2023-05-23","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10205956/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"9519459","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"PS-VTS: particle swarm with visit table strategy for automated emotion recognition with EEG signals.","authors":"Yagmur Olmez, Gonca Ozmen Koca, Abdulkadir Sengur, U Rajendra Acharya","doi":"10.1007/s13755-023-00224-z","DOIUrl":"10.1007/s13755-023-00224-z","url":null,"abstract":"<p><p>Recognizing emotions accurately in real life is crucial in human-computer interaction (HCI) systems. Electroencephalogram (EEG) signals have been extensively employed to identify emotions. The researchers have used several EEG-based emotion identification datasets to validate their proposed models. In this paper, we have employed a novel metaheuristic optimization approach for accurate emotion classification by applying it to select both channel and rhythm of EEG data. In this work, we have proposed the particle swarm with visit table strategy (PS-VTS) metaheuristic technique to improve the effectiveness of EEG-based human emotion identification. First, the EEG signals are denoised using a low pass filter, and then rhythm extraction is done using discrete wavelet transform (DWT). The continuous wavelet transform (CWT) approach transforms each rhythm signal into a rhythm image. The pre-trained MobilNetv2 model has been pre-trained for deep feature extraction, and a support vector machine (SVM) is used to classify the emotions. Two models are developed for optimal channels and rhythm sets. In Model 1, optimal channels are selected separately for each rhythm, and global optima are determined in the optimization process according to the best channel sets of the rhythms. The best rhythms are first determined for each channel, and then the optimal channel-rhythm set is selected in Model 2. Our proposed model obtained an accuracy of 99.2871% and 97.8571% for the classification of HA (high arousal)-LA (low arousal) and HV (high valence)-LV (low valence), respectively with the DEAP dataset. Our generated model obtained the highest classification accuracy compared to the previously reported methods.</p>","PeriodicalId":46312,"journal":{"name":"Health Information Science and Systems","volume":"11 1","pages":"22"},"PeriodicalIF":4.7,"publicationDate":"2023-05-04","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10160266/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"9435492","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Postoperative prognostic nomogram for adult grade II/III astrocytoma in the Chinese Han population.","authors":"Lijie Wang, Jinling Zhang, Jingtao Wang, Hao Xue, Lin Deng, Fengyuan Che, Xueyuan Heng, Xuejun Zheng, Zilong Lu, Liuqing Yang, Qihua Tan, Yeping Xu, Yanchun Zhang, Xiaokang Ji, Gang Li, Fan Yang, Fuzhong Xue","doi":"10.1007/s13755-023-00223-0","DOIUrl":"10.1007/s13755-023-00223-0","url":null,"abstract":"<p><strong>Background: </strong>Prognostic models of glioma have been the focus of many studies. However, most of them are based on Western populations. Additionally, because of the complexity of healthcare data in China, it is important to select a suitable model based on existing clinical data. This study aimed to develop and independently validate a nomogram for predicting the overall survival (OS) with newly diagnosed grade II/III astrocytoma after surgery.</p><p><strong>Methods: </strong>Data of 472 patients with astrocytoma (grades II-III) were collected from Qilu Hospital as training cohort while data of 250 participants from Linyi People's Hospital were collected as validation cohort. Cox proportional hazards model was used to construct the nomogram and individually predicted 1-, 3-, and 5-year survival probabilities. Calibration ability, and discrimination ability were analyzed in both training and validation cohort.</p><p><strong>Results: </strong>Overall survival was negatively associated with histopathology, age, subtotal resection, multiple tumors, lower KPS and midline tumors. Internal validation and external validation showed good discrimination (The C-index for 1-, 3-, and 5-year survival were 0.791, 0.748, 0.733 in internal validation and 0.754, 0.735, 0.730 in external validation, respectively). The calibration curves showed good agreement between the predicted and actual 1-, 3-, and 5-year OS rates.</p><p><strong>Conclusion: </strong>This is the first nomogram study that integrates common clinicopathological factors to provide an individual probabilistic prognosis prediction for Chinese Han patients with astrocytoma (grades II-III). This model can serve as an easy-to-use tool to advise patients and establish optimized surveillance approaches after surgery.</p><p><strong>Supplementary information: </strong>The online version contains supplementary material available at 10.1007/s13755-023-00223-0.</p>","PeriodicalId":46312,"journal":{"name":"Health Information Science and Systems","volume":"11 1","pages":"23"},"PeriodicalIF":4.7,"publicationDate":"2023-05-04","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10160268/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"9430241","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Development and validation of predictive model based on deep learning method for classification of dyslipidemia in Chinese medicine.","authors":"Jinlei Liu, Wenchao Dan, Xudong Liu, Xiaoxue Zhong, Cheng Chen, Qingyong He, Jie Wang","doi":"10.1007/s13755-023-00215-0","DOIUrl":"10.1007/s13755-023-00215-0","url":null,"abstract":"<p><strong>Backgrounds: </strong>Dyslipidemia is a prominent risk factor for cardiovascular diseases and one of the primary independent modifiable factors of diabetes and stroke. Statins can significantly improve the prognosis of dyslipidemia, but its side effects cannot be ignored. Traditional Chinese Medicine (TCM) has been used in clinical practice for more than 2000 years in China and has certain traits in treating dyslipidemia with little side effect. Previous research has shown that Mutual Obstruction of Phlegm and Stasis (MOPS) is the most common dyslipidemia type classified in TCM. However, how to compose diagnostic factors in TCM into diagnostic rules relies heavily on the doctor's experience, falling short in standardization and objectiveness. This is a limit for TCM to play its advantages of treating dyslipidemia with MOPS.</p><p><strong>Methods: </strong>In this study, the syndrome diagnosis in TCM was transformed into the prediction and classification problem in artificial intelligence The deep learning method was employed to build the classification prediction models for dyslipidemia. The models were built and trained with a large amount of multi-centered clinical data on MOPS. The optimal model was screened out by evaluating the performance of prediction models through loss, accuracy, precision, recall, confusion matrix, PR and ROC curve (including AUC).</p><p><strong>Results: </strong>A total of 20 models were constructed through the deep learning method. All of them performed well in the prediction of dyslipidemia with MOPS. The model-11 is the optimal model. The evaluation indicators of model-11 are as follows: The true positive (TP), false positive (FP), true negative (TN) and false negative (FN) are 51, 15, 129, and 9, respectively. The loss is 0.3241, accuracy is 0.8672, precision is 0.7138, recall is 0.8286, and the AUC is 0.9268. After screening through 89 diagnostic factors of TCM, we identified 36 significant diagnosis factors for dyslipidemia with MOPS. The most outstanding diagnostic factors from the importance were dark purple tongue, slippery pulse and slimy fur, etc.</p><p><strong>Conclusions: </strong>This study successfully developed a well-performing classification prediction model for dyslipidemia with MOPS, transforming the syndrome diagnosis problem in TCM into a prediction and classification problem in artificial intelligence. Patients with dyslipidemia of MOPS can be accurately recognized through limited information from patients. We also screened out significant diagnostic factors for composing diagnostic rules of dyslipidemia with MOPS. The study is an avant-garde attempt at introducing the deep-learning method into the research of TCM, which provides a useful reference for the extension of deep learning method to other diseases and the construction of disease diagnosis model in TCM, contributing to the standardization and objectiveness of TCM diagnosis.</p>","PeriodicalId":46312,"journal":{"name":"Health Information Science and Systems","volume":"11 1","pages":"21"},"PeriodicalIF":6.0,"publicationDate":"2023-04-06","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10079798/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"9266739","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Detection and explanation of anomalies in healthcare data.","authors":"Durgesh Samariya, Jiangang Ma, Sunil Aryal, Xiaohui Zhao","doi":"10.1007/s13755-023-00221-2","DOIUrl":"10.1007/s13755-023-00221-2","url":null,"abstract":"<p><p>The growth of databases in the healthcare domain opens multiple doors for machine learning and artificial intelligence technology. Many medical devices are available in the medical field; however, medical errors remain a severe challenge. Different algorithms are developed to identify and solve medical errors, such as detecting anomalous readings, anomalous health conditions of a patient, etc. However, they fail to answer why those entries are considered an anomaly. This research gap leads to an outlying aspect mining problem. The problem of outlying aspect mining aims to discover the set of features (a.k.a subspace) in which the given data point is dramatically different than others. In this paper, we present a framework that detects anomalies in healthcare data and then provides an explanation of anomalies. This paper aims to effectively and efficiently detect anomalies and explain why they are considered anomalies by detecting outlying aspects. First, we re-introduced four anomaly detection techniques and outlying aspect mining algorithms. Then, we evaluate the performance of anomaly detection techniques and choose the best anomaly detection algorithm. Later, we detect the top <i>k</i> anomaly as a query and detect their outlying aspect. Lastly, we evaluate their performance on 16 real-world healthcare datasets. The experimental results show that the latest isolation-based outlying aspect mining measure, SiNNE, has outstanding performance on this task and has promising results.</p>","PeriodicalId":46312,"journal":{"name":"Health Information Science and Systems","volume":"11 1","pages":"20"},"PeriodicalIF":6.0,"publicationDate":"2023-04-06","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10079801/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"9273989","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"A two-stage segmentation of sublingual veins based on compact fully convolutional networks for Traditional Chinese Medicine images.","authors":"Hua Xu, Xiaofei Chen, Peng Qian, Fufeng Li","doi":"10.1007/s13755-023-00214-1","DOIUrl":"10.1007/s13755-023-00214-1","url":null,"abstract":"<p><p>As one of the key methods of Traditional Chinese Medicine inspection, tongue diagnosis manifests the advantages of simplicity and directness. Sublingual veins can provide essential information about human health. In order to automate tongue diagnosis, sublingual veins segmentation has become one important issue in the field of Chinese medicine medical image processing. At present, the primary methods for sublingual veins segmentation are traditional feature engineering methods and the feature representation methods represented by deep learning. The former, which mainly based on colour space, belongs to unsupervised classification method. The latter, which includes U-Net and other deep neural network models, belongs to supervised classification method. Current feature engineering methods can only capture low dimensional information, which makes it difficult to extract efficient features for sublingual veins. On the other hand, current deep learning methods use down-sampling structures, which manifest weak robustness and low accuracy. So, it is difficult for current segmentation approaches to recognize tiny branches of sublingual veins. To overcome the above limits, this paper proposes a novel two-stage semantic segmentation method for sublingual veins. In the first stage, a fully convolutional network without down-sampling is used to realize the accurate segmentation of the tongue that includes the sublingual veins to be segmented in the next stage. During the tongue segmentation, the proposed networks can effectively reduce the loss of medical images spatial feature information. At the same time, in order to expand the receptive field, the dilated convolution has been introduced to the proposed networks, which can capture multi-scale information of segmentation images. In the second stage, another fully convolutional network has been used to segment the sublingual veins on the base of the results from the first stage. In this model, proper dilated convolutional rates have been selected to avoid gridding issue. In order to keep the quality of the images to be segmented, several particular data pre-processing and post-processing have been used, which includes specular highlight removal, data augmentation, erosion and dilation. Finally, in order to evaluate the performance of the proposed model, segmentation results have been compared with the state-of-the-art methods on the base of the dataset from Shanghai University of Traditional Chinese Medicine. The effectiveness of sublingual veins segmentation has been proved.</p>","PeriodicalId":46312,"journal":{"name":"Health Information Science and Systems","volume":"11 1","pages":"19"},"PeriodicalIF":4.7,"publicationDate":"2023-04-06","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10079802/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"9273985","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Generalized metabolic flux analysis framework provides mechanism-based predictions of ophthalmic complications in type 2 diabetes patients.","authors":"Arsen Batagov, Rinkoo Dalan, Andrew Wu, Wenbin Lai, Colin S Tan, Frank Eisenhaber","doi":"10.1007/s13755-023-00218-x","DOIUrl":"10.1007/s13755-023-00218-x","url":null,"abstract":"<p><p>Chronic metabolic diseases arise from changes in metabolic fluxes through biomolecular pathways and gene networks accumulated over the lifetime of an individual. While clinical and biochemical profiles present just real-time snapshots of the patients' health, efficient computation models of the pathological disturbance of biomolecular processes are required to achieve individualized mechanistic insights into disease progression. Here, we describe the Generalized metabolic flux analysis (GMFA) for addressing this gap. Suitably grouping individual metabolites/fluxes into pools simplifies the analysis of the resulting more coarse-grain network. We also map non-metabolic clinical modalities onto the network with additional edges. Instead of using the time coordinate, the system status (metabolite concentrations and fluxes) is quantified as function of a generalized extent variable (a coordinate in the space of generalized metabolites) that represents the system's coordinate along its evolution path and evaluates the degree of change between any two states on that path. We applied GMFA to analyze Type 2 Diabetes Mellitus (T2DM) patients from two cohorts: EVAS (289 patients from Singapore) and NHANES (517) from the USA. Personalized systems biology models (digital twins) were constructed. We deduced disease dynamics from the individually parameterized metabolic network and predicted the evolution path of the metabolic health state. For each patient, we obtained an individual description of disease dynamics and predict an evolution path of the metabolic health state. Our predictive models achieve an ROC-AUC in the range 0.79-0.95 (sensitivity 80-92%, specificity 62-94%) in identifying phenotypes at the baseline and predicting future development of diabetic retinopathy and cataract progression among T2DM patients within 3 years from the baseline. The GMFA method is a step towards realizing the ultimate goal to develop practical predictive computational models for diagnostics based on systems biology. This tool has potential use in chronic disease management in medical practice.</p><p><strong>Supplementary information: </strong>The online version contains supplementary material available at 10.1007/s13755-023-00218-x.</p>","PeriodicalId":46312,"journal":{"name":"Health Information Science and Systems","volume":"11 1","pages":"18"},"PeriodicalIF":6.0,"publicationDate":"2023-03-29","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10060506/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"9296633","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}