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Baghernezhad S, Daliri MR. Age-related changes in human brain functional connectivity using graph theory and machine learning techniques in resting-state fMRI data. GeroScience 2024:10.1007/s11357-024-01128-w. [PMID: 38499956 DOI: 10.1007/s11357-024-01128-w] [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: 11/05/2023] [Accepted: 03/08/2024] [Indexed: 03/20/2024] Open
Abstract
Aging is the basis of neurodegeneration and dementia that affects each endemic in the body. Normal aging in the brain is associated with progressive slowdown and disruptions in various abilities such as motor ability, cognitive impairment, decreasing information processing speed, attention, and memory. With the aggravation of global aging, more research focuses on brain changes in the elderly adult. The graph theory, in combination with functional magnetic resonance imaging (fMRI), makes it possible to evaluate the brain network functional connectivity patterns in different conditions with brain modeling. We have evaluated the brain network communication model changes in three different age groups (including 8 to 15 years, 25 to 35 years, and 45 to 75 years) in lifespan pilot data from the human connectome project (HCP). Initially, Pearson correlation-based connectivity networks were calculated and thresholded. Then, network characteristics were compared between the three age groups by calculating the global and local graph measures. In the resting state brain network, we observed decreasing global efficiency and increasing transitivity with age. Also, brain regions, including the amygdala, putamen, hippocampus, precuneus, inferior temporal gyrus, anterior cingulate gyrus, and middle temporal gyrus, were selected as the most affected brain areas with age through statistical tests and machine learning methods. Using feature selection methods, including Fisher score and Kruskal-Wallis, we were able to classify three age groups using SVM, KNN, and decision-tree classifier. The best classification accuracy is in the combination of Fisher score and decision tree classifier obtained, which was 82.2%. Thus, by examining the measures of functional connectivity using graph theory, we will be able to explore normal age-related changes in the human brain, which can be used as a tool to monitor health with age.
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Affiliation(s)
- Sepideh Baghernezhad
- Neuroscience & Neuroengineering Research Lab, Biomedical Engineering Department, School of Electrical Engineering, Iran University of Science and Technology (IUST), Tehran, Iran
| | - Mohammad Reza Daliri
- Neuroscience & Neuroengineering Research Lab, Biomedical Engineering Department, School of Electrical Engineering, Iran University of Science and Technology (IUST), Tehran, Iran.
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Deng J, Sun J, Lu S, Yue K, Liu W, Shi H, Zou L. Exploring neural activity in inflammatory bowel diseases using functional connectivity and DKI-fMRI fusion. Behav Brain Res 2023; 443:114325. [PMID: 36736668 DOI: 10.1016/j.bbr.2023.114325] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/03/2022] [Revised: 01/02/2023] [Accepted: 01/30/2023] [Indexed: 02/05/2023]
Abstract
Although MRI has made considerable progress in Inflammatory bowel disease (IBD), most studies have concentrated on data information from a single modality, and a better understanding of the interplay between brain function and structure, as well as appropriate clinical aids to diagnosis, is required. We calculated functional connectivity through fMRI time series using resting-state functional magnetic resonance imaging (rs-fMRI) and diffusion kurtosis imaging (DKI) data from 27 IBD patients and 29 healthy controls. Through the DKI data of each subject, its unique structure map is obtained, and the relevant indicators are projected onto the structure map corresponding to each subject by using the graph Fourier transform in the grasp signal processing (GSP) technology. After the features are optimized, a classical support vector machine is used to classify the features. IBD patients have altered functional connectivity in the default mode network (DMN) and subcortical network (SCN). At the same time, compared with the traditional brain network analysis, in the test of some indicators, the average classification accuracy produced by the framework method is 12.73% higher than that of the traditional analysis method. This paper found that the brain network structure of IBD patients in DMN and SCN has changed. Simultaneously, the application of GSP technology to fuse functional information and structural information is superior to the traditional framework in classification, providing a new perspective for subsequent clinical auxiliary diagnosis.
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Affiliation(s)
- Jianjun Deng
- School of Computer and Artificial Intelligence, Changzhou University, Changzhou, Jiangsu 213164, China
| | - Jingwen Sun
- The Affiliated Changzhou No.2 People's Hospital of Nanjing Medical University, Department of Radiology, China
| | - Shuangshuang Lu
- The Affiliated Changzhou No.2 People's Hospital of Nanjing Medical University, Department of Radiology, China
| | - Kecen Yue
- The Affiliated Changzhou No.2 People's Hospital of Nanjing Medical University, Department of Radiology, China
| | - Wenjia Liu
- The Affiliated Changzhou No.2 People's Hospital of Nanjing Medical University, Department of Radiology, China.
| | - Haifeng Shi
- The Affiliated Changzhou No.2 People's Hospital of Nanjing Medical University, Department of Radiology, China.
| | - Ling Zou
- School of Computer and Artificial Intelligence, Changzhou University, Changzhou, Jiangsu 213164, China; School of Microelectronics and Control Engineering, Changzhou University, Changzhou, Jiangsu 213164, China; Key Laboratory of Brain Machine Collaborative Intelligence Foundation of Zhejiang Province, Hangzhou, Zhejiang 310018, China.
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Hejazi S, Karwowski W, Farahani FV, Marek T, Hancock PA. Graph-Based Analysis of Brain Connectivity in Multiple Sclerosis Using Functional MRI: A Systematic Review. Brain Sci 2023; 13:brainsci13020246. [PMID: 36831789 PMCID: PMC9953947 DOI: 10.3390/brainsci13020246] [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: 12/06/2022] [Revised: 01/16/2023] [Accepted: 01/17/2023] [Indexed: 02/04/2023] Open
Abstract
(1) Background: Multiple sclerosis (MS) is an immune system disease in which myelin in the nervous system is affected. This abnormal immune system mechanism causes physical disabilities and cognitive impairment. Functional magnetic resonance imaging (fMRI) is a common neuroimaging technique used in studying MS. Computational methods have recently been applied for disease detection, notably graph theory, which helps researchers understand the entire brain network and functional connectivity. (2) Methods: Relevant databases were searched to identify articles published since 2000 that applied graph theory to study functional brain connectivity in patients with MS based on fMRI. (3) Results: A total of 24 articles were included in the review. In recent years, the application of graph theory in the MS field received increased attention from computational scientists. The graph-theoretical approach was frequently combined with fMRI in studies of functional brain connectivity in MS. Lower EDSSs of MS stage were the criteria for most of the studies (4) Conclusions: This review provides insights into the role of graph theory as a computational method for studying functional brain connectivity in MS. Graph theory is useful in the detection and prediction of MS and can play a significant role in identifying cognitive impairment associated with MS.
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Affiliation(s)
- Sara Hejazi
- Computational Neuroergonomics Laboratory, Department of Industrial Engineering and Management Systems, University of Central Florida, Orlando, FL 32816, USA
- Correspondence:
| | - Waldemar Karwowski
- Computational Neuroergonomics Laboratory, Department of Industrial Engineering and Management Systems, University of Central Florida, Orlando, FL 32816, USA
| | - Farzad V. Farahani
- Department of Biostatistics, Johns Hopkins University, Baltimore, MD 21218, USA
| | - Tadeusz Marek
- Department of Cognitive Neuroscience and Neuroergonomics, Institute of Applied Psychology, Jagiellonian University, 30-348 Kraków, Poland
| | - P. A. Hancock
- Department of Psychology, University of Central Florida, Orlando, FL 32816, USA
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Ashtiani SNM, Behnam H, Daliri MR. Diagnosis of Multiple Sclerosis Using Graph-Theoretic Measures of Cognitive-Task-Based Functional Connectivity Networks. IEEE Trans Cogn Dev Syst 2022. [DOI: 10.1109/tcds.2021.3081605] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
Affiliation(s)
- Seyedeh Naghmeh Miri Ashtiani
- Biomedical Engineering Department, School of Electrical Engineering, Iran University of Science and Technology, Tehran, Iran
| | - Hamid Behnam
- Biomedical Engineering Department, School of Electrical Engineering, Iran University of Science and Technology, Tehran, Iran
| | - Mohammad Reza Daliri
- Biomedical Engineering Department, School of Electrical Engineering, Iran University of Science and Technology, Tehran, Iran
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Fu G, Xie Y, Pan J, Qiu Y, He H, Li Z, Li J, Feng Y, Lv X. Longitudinal study of irradiation-induced brain functional network alterations in patients with nasopharyngeal carcinoma. Radiother Oncol 2022; 173:277-284. [PMID: 35718009 DOI: 10.1016/j.radonc.2022.06.008] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/12/2021] [Revised: 06/04/2022] [Accepted: 06/12/2022] [Indexed: 11/16/2022]
Abstract
BACKGROUND To investigate radiotherapy (RT)-related brain network changes in patients with nasopharyngeal carcinoma (NPC) over time and develop least absolute shrinkage and selection operator (LASSO)-based multivariable normal tissue complication probability (NTCP) models to predict RT-related brain network changes. METHODS 36 NPC patients were followed up at four timepoints: baseline, within 3 months (acute), 6 months (subacute), and 12 months (delayed) post-RT. 15 comparable healthy controls (HCs) were finally included and followed up in parallel. Functional neuroimaging data, dose-volume parameters of bilateral temporal lobes and Montreal Cognitive Assessment (MoCA) were acquired. Graph theoretical analysis and mixed-design analysis of variance were performed to investigate how the brain global and nodal changes were affected by RT. Multivariate logistic regression NTCP models were developed. LASSO with nested cross-validation strategy was used to select features. The relationships between network changes and MoCA changes were also examined. RESULTS Significant changes were detected in nodal efficiency (NE) in NPC patients but not in HCs over time. Altered NE was distributed in the bilateral frontal, temporal lobes and the right insula, which showed a "decrease-increase/recovery" pattern over time. Among all models, the model for predicting NE changes of STG.R showed a relatively good performance (area under the receiver operating curve: 0.68), and D20cc and V20 to right temporal lobe outperformed in this model. CONCLUSION Our findings indicate that RT-induced brain injury begin at the acute period and follow a recovery over time. Furthermore, our study presents prediction models for brain dysfunction based on the dosimetric and clinical parameters.
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Affiliation(s)
- Gui Fu
- Department of Medical Imaging, Sun Yat-sen University Cancer Center, State Key Laboratory of Oncology in South China, Collaborative Innovation Center for Cancer Medicine, Guangdong Key Laboratory of Nasopharyngeal Carcinoma Diagnosis and Therapy, Guangzhou, China
| | - Yuanyao Xie
- School of Biomedical Engineering, Southern Medical University, Guangzhou, China; Guangdong Provincial Key Laboratory of Medical Image Processing & Guangdong Province Engineering Laboratory for Medical Imaging and Diagnostic Technology, Southern Medical University, Guangzhou, China
| | - Jie Pan
- Department of Medical Imaging, Sun Yat-sen University Cancer Center, State Key Laboratory of Oncology in South China, Collaborative Innovation Center for Cancer Medicine, Guangdong Key Laboratory of Nasopharyngeal Carcinoma Diagnosis and Therapy, Guangzhou, China
| | - Yingwei Qiu
- Department of Radiology, Huazhong University of Science and Technology Union Shenzhen Hospital, Shenzhen, China
| | - Haoqiang He
- Department of Medical Imaging, Sun Yat-sen University Cancer Center, State Key Laboratory of Oncology in South China, Collaborative Innovation Center for Cancer Medicine, Guangdong Key Laboratory of Nasopharyngeal Carcinoma Diagnosis and Therapy, Guangzhou, China
| | - Zhipeng Li
- Department of Medical Imaging, Sun Yat-sen University Cancer Center, State Key Laboratory of Oncology in South China, Collaborative Innovation Center for Cancer Medicine, Guangdong Key Laboratory of Nasopharyngeal Carcinoma Diagnosis and Therapy, Guangzhou, China
| | - Jing Li
- Department of Medical Imaging, Sun Yat-sen University Cancer Center, State Key Laboratory of Oncology in South China, Collaborative Innovation Center for Cancer Medicine, Guangdong Key Laboratory of Nasopharyngeal Carcinoma Diagnosis and Therapy, Guangzhou, China
| | - Yanqiu Feng
- School of Biomedical Engineering, Southern Medical University, Guangzhou, China; Guangdong Provincial Key Laboratory of Medical Image Processing & Guangdong Province Engineering Laboratory for Medical Imaging and Diagnostic Technology, Southern Medical University, Guangzhou, China; Guangdong-Hong Kong-Macao Greater Bay Area Center for Brain Science and Brain-Inspired Intelligence & Key Laboratory of Mental Health of the Ministry of Education, Southern Medical University, Guangzhou, China; Department of Rehabilitation, Zhujiang Hospital, Southern Medical University, Guangzhou, China.
| | - Xiaofei Lv
- Department of Medical Imaging, Sun Yat-sen University Cancer Center, State Key Laboratory of Oncology in South China, Collaborative Innovation Center for Cancer Medicine, Guangdong Key Laboratory of Nasopharyngeal Carcinoma Diagnosis and Therapy, Guangzhou, China.
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The diagnosis of amnestic mild cognitive impairment by combining the characteristics of brain functional network and support vector machine classifier. J Neurosci Methods 2021; 363:109334. [PMID: 34428513 DOI: 10.1016/j.jneumeth.2021.109334] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/20/2021] [Revised: 07/20/2021] [Accepted: 08/19/2021] [Indexed: 11/23/2022]
Abstract
BACKGROUND Amnestic mild cognitive impairment (aMCI) is an essential stage of early detection and potential intervention for Alzheimer's disease (AD). Patients with aMCI exhibit partially abnormal functional brain connectivity and it is suggested that these features may represent a new diagnostic marker of early AD. NEW METHOD In this paper, we constructed two brain network models, a phase synchronization index (PSI) undirected network and a directed transfer function (DTF) directed network, to evaluate the cognitive function in patients with aMCI. We then built SVM classification models using the network clustering coefficient, global efficiency and average node degree as features to distinguish between aMCI patients and controls. RESULTS Our results reveal a classification accuracy and AUC of 66.6 ± 1.7% and 0.7475 and 80.0 ± 2.2% and 0.7825, respectively, for the two network models (PSI and DTF). As the directed network model performed better than the undirected model, we introduced an improved graph theory feature, efficiency density, which resulted in an increased classification accuracy and AUC value 86.6 ± 2.6% and 0.8295, respectively. COMPARISON WITH EXISTING METHODS The analysis of network models and the directionality of information flow is suitable for analysis of nonlinear EEG signals for assessment of the functional state of the brain. Compared with traditional network features, our proposed improved features more comprehensively evaluate transmission efficiency and density of the brain. CONCLUSION In this study, we demonstrate that an improved efficiency density feature is helpful for enhancing classification the accuracy of aMCI. Moreover, directed brain network models exhibit better classification for aMCI diagnosis than undirected networks.
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Alshamrani R, Althbiti A, Alshamrani Y, Alkomah F, Ma X. Model-Driven Decision Making in Multiple Sclerosis Research: Existing Works and Latest Trends. PATTERNS 2020; 1:100121. [PMID: 33294867 PMCID: PMC7691382 DOI: 10.1016/j.patter.2020.100121] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Indexed: 12/31/2022]
Abstract
Multiple sclerosis (MS) is a neurological disorder that strikes the central nervous system. Due to the complexity of this disease, healthcare sectors are increasingly in need of shared clinical decision-making tools to provide practitioners with insightful knowledge and information about MS. These tools ought to be comprehensible by both technical and non-technical healthcare audiences. To aid this cause, this literature review analyzes the state-of-the-art decision support systems (DSSs) in MS research with a special focus on model-driven decision-making processes. The review clusters common methodologies used to support the decision-making process in classifying, diagnosing, predicting, and treating MS. This work observes that the majority of the investigated DSSs rely on knowledge-based and machine learning (ML) approaches, so the utilization of ontology and ML in the MS domain is observed to extend the scope of this review. Finally, this review summarizes the state-of-the-art DSSs, discusses the methods that have commonalities, and addresses the future work of applying DSS technologies in the MS field. Multiple sclerosis (MS) is a disorder that strikes the central nervous system of the human body. This article reviews state-of-the-art decision support systems (DSSs) in MS research, as recent studies have highlighted the importance of DSSs in the medical realm. However, the utilization of decision support systems for MS remains an open challenge. A special focus in this article is given to model-driven DSSs, which uses knowledge representation to simplify the complex process for decision makers. We find that most investigated studies use knowledge-based and machine learning approaches. Based on the literature review, we suggest some future work of applying DSSs in the MS domain. Potential future directions should focus on applying DSS technologies to understand the MS patterns, etiology, effects on the quality-of-life, and correlations with other disorders.
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Affiliation(s)
- Rayan Alshamrani
- Department of Computer Science, University of Idaho, Moscow, ID 83844-1010, USA.,Department of Information Technology, Taif University, Taif, Makkah 26571, Saudi Arabia
| | - Ashrf Althbiti
- Department of Computer Science, University of Idaho, Moscow, ID 83844-1010, USA.,Department of Information Technology, Taif University, Taif, Makkah 26571, Saudi Arabia
| | - Yara Alshamrani
- Department of Information Technology, Taif University, Taif, Makkah 26571, Saudi Arabia.,INTO Program, Washington State University, Pullman, WA 99164-3251, USA
| | - Fatimah Alkomah
- Department of Computer Science, University of Idaho, Moscow, ID 83844-1010, USA.,Department of Information Systems, Princess Nourah Bint Abdulrahman University, Riyadh 11671, Saudi Arabia
| | - Xiaogang Ma
- Department of Computer Science, University of Idaho, Moscow, ID 83844-1010, USA
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Welton T, Constantinescu CS, Auer DP, Dineen RA. Graph Theoretic Analysis of Brain Connectomics in Multiple Sclerosis: Reliability and Relationship with Cognition. Brain Connect 2020; 10:95-104. [PMID: 32079409 PMCID: PMC7196369 DOI: 10.1089/brain.2019.0717] [Citation(s) in RCA: 21] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022] Open
Abstract
Research suggests that disruption of brain networks might explain cognitive deficits in multiple sclerosis (MS). The reliability and effectiveness of graph theoretic network metrics as measures of cognitive performance were tested in 37 people with MS and 23 controls. Specifically, relationships with cognitive performance (linear regression against the paced auditory serial addition test-3 seconds [PASAT-3], symbol digit modalities test [SDMT], and attention network test) and 1-month reliability (using the intraclass correlation coefficient [ICC]) of network metrics were measured using both resting-state functional and diffusion magnetic resonance imaging data. Cognitive impairment was directly related to measures of brain network segregation and inversely related to network integration (prediction of PASAT-3 by small worldness, modularity, characteristic path length, R2 = 0.55; prediction of SDMT by small worldness, global efficiency, and characteristic path length, R2 = 0.60). Reliability of the measures for 1 month in a subset of nine participants was mostly rated as good (ICC >0.6) for both controls and MS patients in both functional and diffusion data, but was highly dependent on the chosen parcellation and graph density, with the 0.2–0.5 density range being the most reliable. This suggests that disrupted network organization predicts cognitive impairment in MS and its measurement is reliable for a 1-month period. These new findings support the hypothesis of network disruption as a major determinant of cognitive deficits in MS and the future possibility of the application of derived metrics as surrogate outcomes in trials of therapies for cognitive impairment.
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Affiliation(s)
- Thomas Welton
- Radiological Sciences, Division of Clinical Neuroscience, University of Nottingham, Nottingham, United Kingdom.,Sir Peter Mansfield Imaging Centre, University of Nottingham, Nottingham, United Kingdom.,Sydney Translational Imaging Laboratory, Heart Research Institute, University of Sydney, Camperdown, Australia
| | - Cris S Constantinescu
- Clinical Neurology, Division of Clinical Neuroscience, University of Nottingham, Nottingham, United Kingdom
| | - Dorothee P Auer
- Radiological Sciences, Division of Clinical Neuroscience, University of Nottingham, Nottingham, United Kingdom.,Sir Peter Mansfield Imaging Centre, University of Nottingham, Nottingham, United Kingdom.,NIHR Nottingham Biomedical Research Centre, Nottingham, United Kingdom
| | - Rob A Dineen
- Radiological Sciences, Division of Clinical Neuroscience, University of Nottingham, Nottingham, United Kingdom.,Sir Peter Mansfield Imaging Centre, University of Nottingham, Nottingham, United Kingdom.,NIHR Nottingham Biomedical Research Centre, Nottingham, United Kingdom
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Azarmi F, Miri Ashtiani SN, Shalbaf A, Behnam H, Daliri MR. Granger causality analysis in combination with directed network measures for classification of MS patients and healthy controls using task-related fMRI. Comput Biol Med 2019; 115:103495. [PMID: 31698238 DOI: 10.1016/j.compbiomed.2019.103495] [Citation(s) in RCA: 22] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/24/2019] [Revised: 10/10/2019] [Accepted: 10/10/2019] [Indexed: 11/30/2022]
Abstract
Several studies have already assessed brain network variations in multiple sclerosis (MS) patients and healthy controls (HCs). The underlying neural system's functioning is apparently too complicated, however. Therefore, the neural time series' analysis through new methods is the aim of any recent research. Functional magnetic resonance imaging (fMRI) is a prominent modality for investigating the human brain's neural substrate, especially when cognitive impairment occurs. The present study was an attempt to investigate the brain network's differences between MS patients and HCs using graph-theoretic measures constructed by an effective connectivity measure through statistical tests. The results of the significant measures were then evaluated through machine learning methods. To this end, we gathered blood-oxygen level dependent (BOLD) fMRI data of the participants during the execution of paced auditory serial addition test (PASAT). Granger causality analysis (GCA) was then employed between brain regions' time series on each subject in order to construct a brain network. Afterward, the Wilcoxon rank-sum test was implemented to find the alteration of brain networks between the mentioned groups. According to the results, Global flow coefficient was significantly different between HCs and patients. Moreover, MS disease impacted several areas of the brain including Hippocampus, Para Hippocampal, Thalamus, Cuneus, Superior temporal gyrus, Heschl, Caudate, Medial Frontal Superior Gyrus, Fusiform, Pallidum, and several parts of Cerebellum in centrality measures and local flow coefficient. Most of the obtained regions were related to the cognitive impacts of the disease. We also found the best subset of graph features by means of Fisher score, and classified them to evaluate the features strength for the discrimination of MS patients from HCs via several machine learning methods. Having used the combination of Wilcoxon rank-sum test and Fisher score, we were able to classify MS patients from HCs using linear support vector machine (SVM) with an accuracy of 95%. With regard to the few existing studies on brain network of MS patients, especially during a cognitive task execution, our findings showed that the selected graph measures by Wilcoxon rank-sum test and Fisher score from the GCA-based brain networks resulted in a promising classification accuracy.
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Affiliation(s)
- Farzad Azarmi
- Department of Biomedical Engineering and Medical Physics, School of Medicine, Shahid Beheshti University of Medical Sciences, Tehran, Iran
| | - Seyedeh Naghmeh Miri Ashtiani
- Biomedical Engineering Department, School of Electrical Engineering, Iran University of Science & Technology (IUST), Narmak, 16846-13114, Tehran, Iran
| | - Ahmad Shalbaf
- Department of Biomedical Engineering and Medical Physics, School of Medicine, Shahid Beheshti University of Medical Sciences, Tehran, Iran
| | - Hamid Behnam
- Biomedical Engineering Department, School of Electrical Engineering, Iran University of Science & Technology (IUST), Narmak, 16846-13114, Tehran, Iran
| | - Mohammad Reza Daliri
- Biomedical Engineering Department, School of Electrical Engineering, Iran University of Science & Technology (IUST), Narmak, 16846-13114, Tehran, Iran.
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Farahani FV, Fafrowicz M, Karwowski W, Douglas PK, Domagalik A, Beldzik E, Oginska H, Marek T. Effects of Chronic Sleep Restriction on the Brain Functional Network, as Revealed by Graph Theory. Front Neurosci 2019; 13:1087. [PMID: 31680823 PMCID: PMC6807652 DOI: 10.3389/fnins.2019.01087] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/17/2019] [Accepted: 09/27/2019] [Indexed: 12/30/2022] Open
Abstract
Sleep is a complex and dynamic process for maintaining homeostasis, and a lack of sleep can disrupt whole-body functioning. No organ is as vulnerable to the loss of sleep as the brain. Accordingly, we examined a set of task-based functional magnetic resonance imaging (fMRI) data by using graph theory to assess brain topological changes in subjects in a state of chronic sleep restriction, and then identified diurnal variability in the graph-theoretic measures. Task-based fMRI data were collected in a 1.5T MR scanner from the same participants on two days: after a week of fully restorative sleep and after a week with 35% sleep curtailment. Each day included four scanning sessions throughout the day (at approximately 10:00 AM, 2:00 PM, 6:00 PM, and 10:00 PM). A modified spatial cueing task was applied to evaluate sustained attention. After sleep restriction, the characteristic path length significantly increased at all measurement times, and small-worldness significantly decreased. Assortativity, a measure of network fault tolerance, diminished over the course of the day in both conditions. Local graph measures were altered primarily across the limbic system (particularly in the hippocampus, parahippocampal gyrus, and amygdala), default mode network, and visual network.
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Affiliation(s)
- Farzad V. Farahani
- Computational Neuroergonomics Laboratory, Department of Industrial Engineering & Management Systems, University of Central Florida, Orlando, FL, United States
| | - Magdalena Fafrowicz
- Department of Cognitive Neuroscience and Neuroergonomics, Institute of Applied Psychology, Jagiellonian University, Kraków, Poland
| | - Waldemar Karwowski
- Computational Neuroergonomics Laboratory, Department of Industrial Engineering & Management Systems, University of Central Florida, Orlando, FL, United States
| | - Pamela K. Douglas
- Institute for Simulation and Training, University of Central Florida, Orlando, FL, United States
- Department of Psychiatry and Biobehavioral Sciences, University of California, Los Angeles, Los Angeles, CA, United States
| | - Aleksandra Domagalik
- Brain Imaging Core Facility, Malopolska Centre of Biotechnology, Jagiellonian University, Kraków, Poland
| | - Ewa Beldzik
- Department of Cognitive Neuroscience and Neuroergonomics, Institute of Applied Psychology, Jagiellonian University, Kraków, Poland
| | - Halszka Oginska
- Department of Cognitive Neuroscience and Neuroergonomics, Institute of Applied Psychology, Jagiellonian University, Kraków, Poland
| | - Tadeusz Marek
- Department of Cognitive Neuroscience and Neuroergonomics, Institute of Applied Psychology, Jagiellonian University, Kraków, Poland
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11
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Miri Ashtiani SN, Behnam H, Daliri MR, Hossein-Zadeh GA, Mehrpour M. Analysis of brain functional connectivity network in MS patients constructed by modular structure of sparse weights from cognitive task-related fMRI. AUSTRALASIAN PHYSICAL & ENGINEERING SCIENCES IN MEDICINE 2019; 42:921-938. [PMID: 31452057 DOI: 10.1007/s13246-019-00790-1] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/18/2019] [Accepted: 08/12/2019] [Indexed: 12/17/2022]
Abstract
Cognitive dysfunction in multiple sclerosis (MS) seems to be the result of neural disconnections, leading to a wide range of brain functional network alterations. It is assumed that the analysis of the topological structure of brain connectivity network can be used to assess cognitive impairments in MS disease. We aimed to identify these brain connectivity pattern alterations and detect the significant features for the distinction of MS patients from healthy controls (HC). In this regard, the importance of functional brain networks construction for better exhibition of changes, inducing the improved reflection of functional organization structure should be precisely considered. In this paper, we strove to introduce a framework for modeling the functional connectivity network by considering the two most important intrinsic sparse and modular structures of brain. For the proposed approach, we first derived group-wise sparse representation via learning a common over-complete dictionary matrix from the aggregated cognitive task-based functional magnetic resonance imaging (fMRI) data of all subjects of the two groups to be able to investigate between-group differences. We then applied the modularity concept on achieved sparse coefficients to compute the connectivity strength between the two brain regions. We examined the changes in network topological properties between relapsing-remitting MS (RRMS) and matched HC groups by considering the pairwise connections of regions of the resulted weighted networks and extracting graph-based measures. We found that the informative brain regions were related to their important connectivity weights, which could distinguish MS patients from the healthy controls. The experimental findings also proved the discrimination ability of the modularity measure among all the global features. In addition, we identified such local feature subsets as eigenvector centrality, eccentricity, node strength, and within-module degree, which significantly differed between the two groups. Moreover, these nodal graph measures have been served as the detectors of brain regions, affected by different cognitive deficits. In general, our findings illustrated that integration of sparse representation, modular structure, and pairwise connectivity strength in combination with the graph properties could help us with the early diagnosis of cognitive alterations in the case of MS.
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Affiliation(s)
- Seyedeh Naghmeh Miri Ashtiani
- Biomedical Engineering Department, School of Electrical Engineering, Iran University of Science and Technology (IUST), Tehran, Iran
| | - Hamid Behnam
- Biomedical Engineering Department, School of Electrical Engineering, Iran University of Science and Technology (IUST), Tehran, Iran
| | - Mohammad Reza Daliri
- Biomedical Engineering Department, School of Electrical Engineering, Iran University of Science and Technology (IUST), Tehran, Iran.
| | - Gholam-Ali Hossein-Zadeh
- School of Cognitive Sciences (SCS), Institute for Research in Fundamental Sciences (IPM), Tehran, Iran.,Control and Intelligent Processing Center of Excellence, School of Electrical and Computer Engineering, University College of Engineering, University of Tehran, Tehran, Iran
| | - Masoud Mehrpour
- Department of Neurology, Firoozgar Hospital, Tehran University of Medical Sciences, Tehran, Iran
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Farahani FV, Karwowski W, Lighthall NR. Application of Graph Theory for Identifying Connectivity Patterns in Human Brain Networks: A Systematic Review. Front Neurosci 2019; 13:585. [PMID: 31249501 PMCID: PMC6582769 DOI: 10.3389/fnins.2019.00585] [Citation(s) in RCA: 281] [Impact Index Per Article: 56.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/28/2018] [Accepted: 05/23/2019] [Indexed: 12/20/2022] Open
Abstract
Background: Analysis of the human connectome using functional magnetic resonance imaging (fMRI) started in the mid-1990s and attracted increasing attention in attempts to discover the neural underpinnings of human cognition and neurological disorders. In general, brain connectivity patterns from fMRI data are classified as statistical dependencies (functional connectivity) or causal interactions (effective connectivity) among various neural units. Computational methods, especially graph theory-based methods, have recently played a significant role in understanding brain connectivity architecture. Objectives: Thanks to the emergence of graph theoretical analysis, the main purpose of the current paper is to systematically review how brain properties can emerge through the interactions of distinct neuronal units in various cognitive and neurological applications using fMRI. Moreover, this article provides an overview of the existing functional and effective connectivity methods used to construct the brain network, along with their advantages and pitfalls. Methods: In this systematic review, the databases Science Direct, Scopus, arXiv, Google Scholar, IEEE Xplore, PsycINFO, PubMed, and SpringerLink are employed for exploring the evolution of computational methods in human brain connectivity from 1990 to the present, focusing on graph theory. The Cochrane Collaboration's tool was used to assess the risk of bias in individual studies. Results: Our results show that graph theory and its implications in cognitive neuroscience have attracted the attention of researchers since 2009 (as the Human Connectome Project launched), because of their prominent capability in characterizing the behavior of complex brain systems. Although graph theoretical approach can be generally applied to either functional or effective connectivity patterns during rest or task performance, to date, most articles have focused on the resting-state functional connectivity. Conclusions: This review provides an insight into how to utilize graph theoretical measures to make neurobiological inferences regarding the mechanisms underlying human cognition and behavior as well as different brain disorders.
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Affiliation(s)
- Farzad V Farahani
- Computational Neuroergonomics Laboratory, Department of Industrial Engineering and Management Systems, University of Central Florida, Orlando, FL, United States
| | - Waldemar Karwowski
- Computational Neuroergonomics Laboratory, Department of Industrial Engineering and Management Systems, University of Central Florida, Orlando, FL, United States
| | - Nichole R Lighthall
- Department of Psychology, University of Central Florida, Orlando, FL, United States
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Farahani FV, Karwowski W, Lighthall NR. Application of Graph Theory for Identifying Connectivity Patterns in Human Brain Networks: A Systematic Review. Front Neurosci 2019. [PMID: 31249501 DOI: 10.3389/fnins.2019.00585/bibtex] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 04/23/2023] Open
Abstract
Background: Analysis of the human connectome using functional magnetic resonance imaging (fMRI) started in the mid-1990s and attracted increasing attention in attempts to discover the neural underpinnings of human cognition and neurological disorders. In general, brain connectivity patterns from fMRI data are classified as statistical dependencies (functional connectivity) or causal interactions (effective connectivity) among various neural units. Computational methods, especially graph theory-based methods, have recently played a significant role in understanding brain connectivity architecture. Objectives: Thanks to the emergence of graph theoretical analysis, the main purpose of the current paper is to systematically review how brain properties can emerge through the interactions of distinct neuronal units in various cognitive and neurological applications using fMRI. Moreover, this article provides an overview of the existing functional and effective connectivity methods used to construct the brain network, along with their advantages and pitfalls. Methods: In this systematic review, the databases Science Direct, Scopus, arXiv, Google Scholar, IEEE Xplore, PsycINFO, PubMed, and SpringerLink are employed for exploring the evolution of computational methods in human brain connectivity from 1990 to the present, focusing on graph theory. The Cochrane Collaboration's tool was used to assess the risk of bias in individual studies. Results: Our results show that graph theory and its implications in cognitive neuroscience have attracted the attention of researchers since 2009 (as the Human Connectome Project launched), because of their prominent capability in characterizing the behavior of complex brain systems. Although graph theoretical approach can be generally applied to either functional or effective connectivity patterns during rest or task performance, to date, most articles have focused on the resting-state functional connectivity. Conclusions: This review provides an insight into how to utilize graph theoretical measures to make neurobiological inferences regarding the mechanisms underlying human cognition and behavior as well as different brain disorders.
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Affiliation(s)
- Farzad V Farahani
- Computational Neuroergonomics Laboratory, Department of Industrial Engineering and Management Systems, University of Central Florida, Orlando, FL, United States
| | - Waldemar Karwowski
- Computational Neuroergonomics Laboratory, Department of Industrial Engineering and Management Systems, University of Central Florida, Orlando, FL, United States
| | - Nichole R Lighthall
- Department of Psychology, University of Central Florida, Orlando, FL, United States
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