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Hakonen M, Dahmani L, Lankinen K, Ren J, Barbaro J, Blazejewska A, Cui W, Kotlarz P, Li M, Polimeni JR, Turpin T, Uluç I, Wang D, Liu H, Ahveninen J. Individual connectivity-based parcellations reflect functional properties of human auditory cortex. BIORXIV : THE PREPRINT SERVER FOR BIOLOGY 2024:2024.01.20.576475. [PMID: 38293021 PMCID: PMC10827228 DOI: 10.1101/2024.01.20.576475] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 02/01/2024]
Abstract
Neuroimaging studies of the functional organization of human auditory cortex have focused on group-level analyses to identify tendencies that represent the typical brain. Here, we mapped auditory areas of the human superior temporal cortex (STC) in 30 participants by combining functional network analysis and 1-mm isotropic resolution 7T functional magnetic resonance imaging (fMRI). Two resting-state fMRI sessions, and one or two auditory and audiovisual speech localizer sessions, were collected on 3-4 separate days. We generated a set of functional network-based parcellations from these data. Solutions with 4, 6, and 11 networks were selected for closer examination based on local maxima of Dice and Silhouette values. The resulting parcellation of auditory cortices showed high intraindividual reproducibility both between resting state sessions (Dice coefficient: 69-78%) and between resting state and task sessions (Dice coefficient: 62-73%). This demonstrates that auditory areas in STC can be reliably segmented into functional subareas. The interindividual variability was significantly larger than intraindividual variability (Dice coefficient: 57%-68%, p<0.001), indicating that the parcellations also captured meaningful interindividual variability. The individual-specific parcellations yielded the highest alignment with task response topographies, suggesting that individual variability in parcellations reflects individual variability in auditory function. Connectional homogeneity within networks was also highest for the individual-specific parcellations. Furthermore, the similarity in the functional parcellations was not explainable by the similarity of macroanatomical properties of auditory cortex. Our findings suggest that individual-level parcellations capture meaningful idiosyncrasies in auditory cortex organization.
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Affiliation(s)
- M Hakonen
- Athinoula A. Martinos Center for Biomedical Imaging, Department of Radiology, Massachusetts General Hospital Charlestown, MA, USA
- Department of Radiology, Harvard Medical School, Boston, MA, USA
| | - L Dahmani
- Athinoula A. Martinos Center for Biomedical Imaging, Department of Radiology, Massachusetts General Hospital Charlestown, MA, USA
- Department of Radiology, Harvard Medical School, Boston, MA, USA
| | - K Lankinen
- Athinoula A. Martinos Center for Biomedical Imaging, Department of Radiology, Massachusetts General Hospital Charlestown, MA, USA
- Department of Radiology, Harvard Medical School, Boston, MA, USA
| | - J Ren
- Division of Brain Sciences, Changping Laboratory, Beijing, China
| | - J Barbaro
- Athinoula A. Martinos Center for Biomedical Imaging, Department of Radiology, Massachusetts General Hospital Charlestown, MA, USA
| | - A Blazejewska
- Athinoula A. Martinos Center for Biomedical Imaging, Department of Radiology, Massachusetts General Hospital Charlestown, MA, USA
- Department of Radiology, Harvard Medical School, Boston, MA, USA
| | - W Cui
- Division of Brain Sciences, Changping Laboratory, Beijing, China
| | - P Kotlarz
- Athinoula A. Martinos Center for Biomedical Imaging, Department of Radiology, Massachusetts General Hospital Charlestown, MA, USA
| | - M Li
- Division of Brain Sciences, Changping Laboratory, Beijing, China
| | - J R Polimeni
- Athinoula A. Martinos Center for Biomedical Imaging, Department of Radiology, Massachusetts General Hospital Charlestown, MA, USA
- Department of Radiology, Harvard Medical School, Boston, MA, USA
- Harvard-MIT Program in Health Sciences and Technology, Massachusetts Institute of Technology, Cambridge, MA, USA
| | - T Turpin
- Athinoula A. Martinos Center for Biomedical Imaging, Department of Radiology, Massachusetts General Hospital Charlestown, MA, USA
| | - I Uluç
- Athinoula A. Martinos Center for Biomedical Imaging, Department of Radiology, Massachusetts General Hospital Charlestown, MA, USA
- Department of Radiology, Harvard Medical School, Boston, MA, USA
| | - D Wang
- Athinoula A. Martinos Center for Biomedical Imaging, Department of Radiology, Massachusetts General Hospital Charlestown, MA, USA
- Department of Radiology, Harvard Medical School, Boston, MA, USA
| | - H Liu
- Division of Brain Sciences, Changping Laboratory, Beijing, China
- Biomedical Pioneering Innovation Center (BIOPIC), Peking University, Beijing, China
| | - J Ahveninen
- Athinoula A. Martinos Center for Biomedical Imaging, Department of Radiology, Massachusetts General Hospital Charlestown, MA, USA
- Department of Radiology, Harvard Medical School, Boston, MA, USA
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2
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Thirion B, Aggarwal H, Ponce AF, Pinho AL, Thual A. Should one go for individual- or group-level brain parcellations? A deep-phenotyping benchmark. Brain Struct Funct 2024; 229:161-181. [PMID: 38012283 DOI: 10.1007/s00429-023-02723-x] [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: 08/08/2023] [Accepted: 10/11/2023] [Indexed: 11/29/2023]
Abstract
The analysis and understanding of brain characteristics often require considering region-level information rather than voxel-sampled data. Subject-specific parcellations have been put forward in recent years, as they can adapt to individual brain organization and thus offer more accurate individual summaries than standard atlases. However, the price to pay for adaptability is the lack of group-level consistency of the data representation. Here, we investigate whether the good representations brought by individualized models are merely an effect of circular analysis, in which individual brain features are better represented by subject-specific summaries, or whether this carries over to new individuals, i.e., whether one can actually adapt an existing parcellation to new individuals and still obtain good summaries in these individuals. For this, we adapt a dictionary-learning method to produce brain parcellations. We use it on a deep-phenotyping dataset to assess quantitatively the patterns of activity obtained under naturalistic and controlled-task-based settings. We show that the benefits of individual parcellations are substantial, but that they vary a lot across brain systems.
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Affiliation(s)
| | | | | | - Ana Luísa Pinho
- Department of Computer Science, Western University, London, ON, Canada
- Western Institute for Neuroscience, Western University, London, ON, Canada
| | - Alexis Thual
- Inria, CEA, Université Paris-Saclay, 91120, Palaiseau, France
- Inserm, Collège de France, Paris, France
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Wang F, Zhang H, Wu Z, Hu D, Zhou Z, Girault JB, Wang L, Lin W, Li G. Fine-grained functional parcellation maps of the infant cerebral cortex. eLife 2023; 12:e75401. [PMID: 37526293 PMCID: PMC10393291 DOI: 10.7554/elife.75401] [Citation(s) in RCA: 9] [Impact Index Per Article: 9.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/09/2021] [Accepted: 07/17/2023] [Indexed: 08/02/2023] Open
Abstract
Resting-state functional MRI (rs-fMRI) is widely used to examine the dynamic brain functional development of infants, but these studies typically require precise cortical parcellation maps, which cannot be directly borrowed from adult-based functional parcellation maps due to the substantial differences in functional brain organization between infants and adults. Creating infant-specific cortical parcellation maps is thus highly desired but remains challenging due to difficulties in acquiring and processing infant brain MRIs. In this study, we leveraged 1064 high-resolution longitudinal rs-fMRIs from 197 typically developing infants and toddlers from birth to 24 months who participated in the Baby Connectome Project to develop the first set of infant-specific, fine-grained, surface-based cortical functional parcellation maps. To establish meaningful cortical functional correspondence across individuals, we performed cortical co-registration using both the cortical folding geometric features and the local gradient of functional connectivity (FC). Then we generated both age-related and age-independent cortical parcellation maps with over 800 fine-grained parcels during infancy based on aligned and averaged local gradient maps of FC across individuals. These parcellation maps reveal complex functional developmental patterns, such as changes in local gradient, network size, and local efficiency, especially during the first 9 postnatal months. Our generated fine-grained infant cortical functional parcellation maps are publicly available at https://www.nitrc.org/projects/infantsurfatlas/ for advancing the pediatric neuroimaging field.
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Affiliation(s)
- Fan Wang
- Key Laboratory of Biomedical Information Engineering of Ministry of Education, Department of Biomedical Engineering, School of Life Science and Technology, Xi'an Jiaotong UniversityXi'anChina
- Department of Radiology and Biomedical Research Imaging Center, the University of North Carolina at Chapel HillChapel HillUnited States
| | - Han Zhang
- Department of Radiology and Biomedical Research Imaging Center, the University of North Carolina at Chapel HillChapel HillUnited States
| | - Zhengwang Wu
- Department of Radiology and Biomedical Research Imaging Center, the University of North Carolina at Chapel HillChapel HillUnited States
| | - Dan Hu
- Department of Radiology and Biomedical Research Imaging Center, the University of North Carolina at Chapel HillChapel HillUnited States
| | - Zhen Zhou
- Department of Radiology and Biomedical Research Imaging Center, the University of North Carolina at Chapel HillChapel HillUnited States
| | - Jessica B Girault
- Department of Psychiatry, the University of North Carolina at Chapel HillChapel HillUnited States
| | - Li Wang
- Department of Radiology and Biomedical Research Imaging Center, the University of North Carolina at Chapel HillChapel HillUnited States
| | - Weili Lin
- Department of Radiology and Biomedical Research Imaging Center, the University of North Carolina at Chapel HillChapel HillUnited States
| | - Gang Li
- Department of Radiology and Biomedical Research Imaging Center, the University of North Carolina at Chapel HillChapel HillUnited States
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Liu Y, Yu Q, Cheng L, Chen J, Gao J, Liu Y, Lin X, Wang X, Hou Z. The parcellation of cingulate cortex in neonatal period based on resting-state functional MRI. Cereb Cortex 2023; 33:2548-2558. [PMID: 35689654 DOI: 10.1093/cercor/bhac225] [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: 03/26/2022] [Revised: 05/11/2022] [Accepted: 05/12/2022] [Indexed: 11/14/2022] Open
Abstract
The human cingulate cortex (CC) is a complex region that is characterized by heterogeneous cytoarchitecture, connectivity, and function, and it is associated with various cognitive functions. The adult CC has been divided into various subregions, and this subdivision is highly consistent with its functional differentiation. However, only a few studies have focused on the function of neonatal CC. The aim of this study was to describe the cingulate segregation and the functional connectivity of each subdivision in full-term neonates (n = 60) based on resting-state functional magnetic resonance imaging. The neonatal CC was divided into three subregions, and each subregion showed specific connectivity patterns. The anterior cingulate cortex was mainly correlated with brain regions related to the salience (affected) network and default mode network (DMN), the midcingulate cortex was related to motor areas, and the posterior cingulate cortex was coupled with DMN. Moreover, we found that the cingulate subregions showed distinct functional profiles with major brain networks, which were defined using independent component analysis, and exhibited functional lateralization. This study provided new insights into the understanding of the functional specialization of neonatal CC, and these findings may have significant clinical implications, especially in predicting neurological disorder.
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Affiliation(s)
- Yanyan Liu
- Department of Medical Imaging, Shandong Provincial Hospital Affiliated to Shandong First Medical University, Jinan, Shandong 250014, China
| | - Qiaowen Yu
- Department of Medical Imaging, Shandong Provincial Hospital Affiliated to Shandong First Medical University, Jinan, Shandong 250014, China
- Department of Medical Imaging, Shandong Provincial Hospital, Jinan, Shandong 250014, China
- Department of Medical Imaging, Shandong Provincial Hospital, Shandong University, Jinan, Shandong 250014, China
| | - Luqi Cheng
- School of Life and Environmental Sciences, Guilin University of Electronic Technology, Guilin 541004, China
| | - Jinge Chen
- Department of Medical Imaging, Shandong Provincial Hospital Affiliated to Shandong First Medical University, Jinan, Shandong 250014, China
| | - Jie Gao
- Department of Medical Imaging, Shandong Provincial Hospital Affiliated to Shandong First Medical University, Jinan, Shandong 250014, China
| | - Yujia Liu
- Department of Medical Imaging, Shandong Provincial Hospital Affiliated to Shandong First Medical University, Jinan, Shandong 250014, China
| | - Xiangtao Lin
- Department of Medical Imaging, Shandong Provincial Hospital Affiliated to Shandong First Medical University, Jinan, Shandong 250014, China
- Department of Medical Imaging, Shandong Provincial Hospital, Jinan, Shandong 250014, China
- Department of Medical Imaging, Shandong Provincial Hospital, Shandong University, Jinan, Shandong 250014, China
| | - Ximing Wang
- Department of Medical Imaging, Shandong Provincial Hospital Affiliated to Shandong First Medical University, Jinan, Shandong 250014, China
- Department of Medical Imaging, Shandong Provincial Hospital, Jinan, Shandong 250014, China
- Department of Medical Imaging, Shandong Provincial Hospital, Shandong University, Jinan, Shandong 250014, China
| | - Zhongyu Hou
- Department of Medical Imaging, Shandong Provincial Hospital Affiliated to Shandong First Medical University, Jinan, Shandong 250014, China
- Department of Medical Imaging, Shandong Provincial Hospital, Jinan, Shandong 250014, China
- Department of Medical Imaging, Shandong Provincial Hospital, Shandong University, Jinan, Shandong 250014, China
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Li Y, Liu A, Fu X, Mckeown MJ, Wang ZJ, Chen X. Atlas-guided parcellation: Individualized functionally-homogenous parcellation in cerebral cortex. Comput Biol Med 2022; 150:106078. [PMID: 36155266 DOI: 10.1016/j.compbiomed.2022.106078] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/28/2022] [Revised: 08/23/2022] [Accepted: 09/03/2022] [Indexed: 11/03/2022]
Abstract
Resting-state Magnetic resonance imaging-based parcellation aims to group the voxels/vertices non-invasively based on their connectivity profiles, which has achieved great success in understanding the fundamental organizational principles of the human brain. Given the substantial inter-individual variability, the increasing number of studies focus on individual parcellation. However, current methods perform individual parcellations independently or are based on the group prior, requiring expensive computational costs, precise parcel alignment, and extra group information. In this work, an efficient and flexible parcellation framework of individual cerebral cortex was proposed based on a region growing algorithm by merging the unassigned and neighbor vertex with the highest-correlated parcel iteratively. It considered both consistency with prior atlases and individualized functional homogeneity of parcels, which can be applied to a single individual without parcel alignment and group information. The proposed framework was leveraged to 100 unrelated subjects for functional homogeneity comparison and individual identification, and 186 patients with Parkison's disease for symptom prediction. Results demonstrated our framework outperformed other methods in functional homogeneity, and the generated parcellations provided 100% individual identification accuracy. Moreover, the default mode network (DMN) exhibited higher functional homogeneity, intra-subject parcel reproducibility and fingerprinting accuracy, while the sensorimotor network did the opposite, reflecting that the DMN is the most representative, stable, and individual-identifiable network in the resting state. The correlation analysis showed that the severity of the disease symptoms was related negatively to the similarity of individual parcellation and the atlases of healthy populations. The disease severity can be correctly predicted using machine learning models based on individual topographic features such as parcel similarity and parcel size. In summary, the proposed framework not only significantly improves the functional homogeneity but also captures individualized and disease-related brain topography, serving as a potential tool to explore brain function and disease in the future.
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Affiliation(s)
- Yu Li
- Department of Neurosurgery, The First Affiliated Hospital of USTC, Division of Life Sciences and Medicine, University of Science and Technology of China, Hefei, 230001, China; School of Information Science and Technology, University of Science and Technology of China, Hefei, 230026, China
| | - Aiping Liu
- Department of Neurosurgery, The First Affiliated Hospital of USTC, Division of Life Sciences and Medicine, University of Science and Technology of China, Hefei, 230001, China; School of Information Science and Technology, University of Science and Technology of China, Hefei, 230026, China.
| | - Xueyang Fu
- School of Information Science and Technology, University of Science and Technology of China, Hefei, 230026, China
| | - Martin J Mckeown
- Pacific Parkinson's Research Centre, Vancouver, British Columbia, V6E 2M6, Canada; Department of Medicine (Neurology), University of British Columbia, Vancouver, British Columbia, V6T 2B5, Canada
| | - Z Jane Wang
- Department of Electrical and Computer Engineering, University of British Columbia, Vancouver, British Columbia, V6T 1Z4, Canada
| | - Xun Chen
- Department of Neurosurgery, The First Affiliated Hospital of USTC, Division of Life Sciences and Medicine, University of Science and Technology of China, Hefei, 230001, China; School of Information Science and Technology, University of Science and Technology of China, Hefei, 230026, China
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Huang Z, Gao W, Wu Z, Li G, Nie J. Functional brain activity is highly associated with cortical myelination in neonates. Cereb Cortex 2022; 33:3985-3995. [PMID: 36030387 DOI: 10.1093/cercor/bhac321] [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: 03/15/2022] [Revised: 07/20/2022] [Accepted: 07/22/2022] [Indexed: 11/12/2022] Open
Abstract
Functional organization of the human cerebral cortex is highly constrained by underlying brain structures, but how functional activity is associated with different brain structures during development is not clear, especially at the neonatal stage. Since long-range functional connectivity is far from mature in the dynamically developing neonatal brain, it is of great scientific significance to investigate the relationship between different structural and functional features at the local level. To this end, for the first time, correlation and regression analyses were performed to examine the relationship between cortical morphology, cortical myelination, age, and local brain functional activity, as well as functional connectivity strength using high-resolution structural and resting-state functional MRI data of 177 neonates (29-44 postmenopausal weeks, 98 male and 79 female) from both static and dynamic perspectives. We found that cortical myelination was most strongly associated with local brain functional activity across the cerebral cortex than other cortical structural features while controlling the age effect. These findings suggest the crucial role of cortical myelination in local brain functional development at birth, providing valuable insights into the fundamental biological basis of functional activity at this early developmental stage.
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Affiliation(s)
- Ziyi Huang
- School of Psychology, Center for Studies of Psychological Application, and Guangdong Key Laboratory of Mental Health and Cognitive Science, South China Normal University, Guangzhou 510631, China
| | - Wenjian Gao
- School of Psychology, Center for Studies of Psychological Application, and Guangdong Key Laboratory of Mental Health and Cognitive Science, South China Normal University,Guangzhou 510631, China
| | - Zhengwang Wu
- Department of Radiology and Biomedical Research Imaging Center, University of North Carolina at Chapel Hill, Chapel Hill, NC 27599, USA
| | - Gang Li
- Department of Radiology and Biomedical Research Imaging Center, University of North Carolina at Chapel Hill, Chapel Hill, NC 27599, USA
| | - Jingxin Nie
- School of Psychology, Center for Studies of Psychological Application, and Guangdong Key Laboratory of Mental Health and Cognitive Science, South China Normal University, Guangzhou 510631, China
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Moghimi P, Dang AT, Do Q, Netoff TI, Lim KO, Atluri G. Evaluation of functional MRI-based human brain parcellation: a review. J Neurophysiol 2022; 128:197-217. [PMID: 35675446 DOI: 10.1152/jn.00411.2021] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022] Open
Abstract
Brain parcellations play a crucial role in the analysis of brain imaging data sets, as they can significantly affect the outcome of the analysis. In recent years, several novel approaches for constructing MRI-based brain parcellations have been developed with promising results. In the absence of ground truth, several evaluation approaches have been used to evaluate currently available brain parcellations. In this article, we review and critique methods used for evaluating functional brain parcellations constructed using fMRI data sets. We also describe how some of these evaluation methods have been used to estimate the optimal parcellation granularity. We provide a critical discussion of the current approach to the problem of identifying the optimal brain parcellation that is suited for a given neuroimaging study. We argue that the criteria for an optimal brain parcellation must depend on the application the parcellation is intended for. We describe a teleological approach to the evaluation of brain parcellations, where brain parcellations are evaluated in different contexts and optimal brain parcellations for each context are identified separately. We conclude by discussing several directions for further research that would result in improved evaluation strategies.
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Affiliation(s)
- Pantea Moghimi
- Department of Neurobiology, University of Chicago, Chicago, Illinois
| | - Anh The Dang
- Department of Electrical Engineering and Computer Science, University of Cincinnati, Cincinnati, Ohio
| | - Quan Do
- Department of Electrical Engineering and Computer Science, University of Cincinnati, Cincinnati, Ohio
| | - Theoden I Netoff
- Department of Biomedical Engineering, University of Minnesota, Minneapolis, Minnesota
| | - Kelvin O Lim
- Department of Psychiatry, University of Minnesota, Minneapolis, Minnesota
| | - Gowtham Atluri
- Department of Electrical Engineering and Computer Science, University of Cincinnati, Cincinnati, Ohio
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Gao W, Huang Z, Ou W, Tang X, Lv W, Nie J. Functional individual variability development of the neonatal brain. Brain Struct Funct 2022; 227:2181-2190. [PMID: 35668328 DOI: 10.1007/s00429-022-02516-8] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/10/2021] [Accepted: 05/22/2022] [Indexed: 11/28/2022]
Abstract
Individual variability in cognition and behavior results from the differences in brain structure and function that have already emerged before birth. However, little is known about individual variability in brain functional architecture at local level in neonates which is of great significance to explore owing to largely undeveloped long-range functional connectivity and segregated functions in early brain development. To address this, resting-state fMRI data of 163 neonates ranged from 32 to 45 postconceptional weeks (PCW) were used in this study, and various functional features including functional parcellation similarity, local brain activity and local functional connectivity were used to characterize individual functional variability. We observed significantly higher local functional individual variability in superior parietal, sensorimotor, and visual cortex, and lower variability in the frontal, insula and cingulate cortex relative to other regions within each hemisphere. The mean local functional individual variability significantly increased with age, and the age effect was found larger in brain regions such as the occipital, temporal, prefrontal and parietal cortex. Our findings promote the understanding of brain plasticity and regional differential maturation in the early stage.
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Affiliation(s)
- Wenjian Gao
- School of Psychology, Center for Studies of Psychological Application, and Guangdong Key Laboratory of Mental Health and Cognitive Science, South China Normal University, Guangzhou, 510631, China.,Key Laboratory of Brain, Cognition and Education Sciences, Ministry of Education (South China Normal University), Guangzhou, China
| | - Ziyi Huang
- School of Psychology, Center for Studies of Psychological Application, and Guangdong Key Laboratory of Mental Health and Cognitive Science, South China Normal University, Guangzhou, 510631, China.,Key Laboratory of Brain, Cognition and Education Sciences, Ministry of Education (South China Normal University), Guangzhou, China
| | - Wenfei Ou
- School of Psychology, Center for Studies of Psychological Application, and Guangdong Key Laboratory of Mental Health and Cognitive Science, South China Normal University, Guangzhou, 510631, China.,Key Laboratory of Brain, Cognition and Education Sciences, Ministry of Education (South China Normal University), Guangzhou, China
| | - Xiaoqian Tang
- School of Psychology, Center for Studies of Psychological Application, and Guangdong Key Laboratory of Mental Health and Cognitive Science, South China Normal University, Guangzhou, 510631, China.,Key Laboratory of Brain, Cognition and Education Sciences, Ministry of Education (South China Normal University), Guangzhou, China
| | - Wanying Lv
- School of Psychology, Center for Studies of Psychological Application, and Guangdong Key Laboratory of Mental Health and Cognitive Science, South China Normal University, Guangzhou, 510631, China.,Key Laboratory of Brain, Cognition and Education Sciences, Ministry of Education (South China Normal University), Guangzhou, China
| | - Jingxin Nie
- School of Psychology, Center for Studies of Psychological Application, and Guangdong Key Laboratory of Mental Health and Cognitive Science, South China Normal University, Guangzhou, 510631, China. .,Key Laboratory of Brain, Cognition and Education Sciences, Ministry of Education (South China Normal University), Guangzhou, China.
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Kazemivash B, Calhoun VD. A novel 5D brain parcellation approach based on spatio-temporal encoding of resting fMRI data from deep residual learning. J Neurosci Methods 2022; 369:109478. [PMID: 35031344 PMCID: PMC9394484 DOI: 10.1016/j.jneumeth.2022.109478] [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: 08/10/2021] [Revised: 12/15/2021] [Accepted: 01/06/2022] [Indexed: 10/19/2022]
Abstract
OBJECTIVE Brain parcellation is an essential aspect of computational neuroimaging research and deals with segmenting the brain into (possibly overlapping) sub-regions employed to study brain anatomy or function. In the context of functional parcellation, brain organization which is often measured via temporal metrics such as coherence, is highly dynamic. This dynamic aspect is ignored in most research, which typically applies anatomically based, fixed regions for each individual, and can produce misleading results. METHODS In this work, we propose a novel spatio-temporal-network (5D) brain parcellation scheme utilizing a deep residual network to predict the probability of each voxel belonging to a brain network at each point in time. RESULTS We trained 53 4D brain networks and evaluate the ability of these networks to capture spatial and temporal dynamics as well as to show sensitivity to individual or group-level variation (in our case with age). CONCLUSION The proposed system generates informative spatio-temporal networks that vary not only across individuals but also over time and space. SIGNIFICANCE The dynamic 5D nature of the developed approach provides a powerful framework that expands on existing work and has potential to identify novel and typically ignored findings when studying the healthy and disordered brain.
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Affiliation(s)
- Behnam Kazemivash
- Department of Computer Science, Georgia State University, Atlanta, GA 30332, USA.
| | - Vince D. Calhoun
- Tri-Institutional Center for Translational Research in Neuroimaging and Data Science (TReNDS), Georgia State University, Georgia Institute of Technology, and Emory University, Atlanta GA 30303
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