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      Functional and Structural Connectome Features for Machine Learning Chemo-Brain Prediction in Women Treated for Breast Cancer with Chemotherapy

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          Abstract

          Breast cancer is the leading cancer among women worldwide, and a high number of breast cancer patients are struggling with psychological and cognitive disorders. In this study, we aim to use machine learning models to discriminate between chemo-brain participants and healthy controls (HCs) using connectomes (connectivity matrices) and topological coefficients. Nineteen female post-chemotherapy breast cancer (BC) survivors and 20 female HCs were recruited for this study. Participants in both groups received resting-state functional magnetic resonance imaging (rs-fMRI) and generalized q-sampling imaging (GQI). Logistic regression (LR), decision tree classifier (CART), and xgboost (XGB) were the models we adopted for classification. In connectome analysis, LR achieved an accuracy of 79.49% with the functional connectomes and an accuracy of 71.05% with the structural connectomes. In the topological coefficient analysis, accuracies of 87.18%, 82.05%, and 83.78% were obtained by the functional global efficiency with CART, the functional global efficiency with XGB, and the structural transitivity with CART, respectively. The areas under the curves (AUCs) were 0.93, 0.94, 0.87, 0.88, and 0.84, respectively. Our study showed the discriminating ability of functional connectomes, structural connectomes, and global efficiency. We hope our findings can contribute to an understanding of the chemo brain and the establishment of a clinical system for tracking chemo brain.

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          Most cited references55

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          Matplotlib: A 2D Graphics Environment

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            Complex network measures of brain connectivity: uses and interpretations.

            Brain connectivity datasets comprise networks of brain regions connected by anatomical tracts or by functional associations. Complex network analysis-a new multidisciplinary approach to the study of complex systems-aims to characterize these brain networks with a small number of neurobiologically meaningful and easily computable measures. In this article, we discuss construction of brain networks from connectivity data and describe the most commonly used network measures of structural and functional connectivity. We describe measures that variously detect functional integration and segregation, quantify centrality of individual brain regions or pathways, characterize patterns of local anatomical circuitry, and test resilience of networks to insult. We discuss the issues surrounding comparison of structural and functional network connectivity, as well as comparison of networks across subjects. Finally, we describe a Matlab toolbox (http://www.brain-connectivity-toolbox.net) accompanying this article and containing a collection of complex network measures and large-scale neuroanatomical connectivity datasets. Copyright (c) 2009 Elsevier Inc. All rights reserved.
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              Conn: a functional connectivity toolbox for correlated and anticorrelated brain networks.

              Resting state functional connectivity reveals intrinsic, spontaneous networks that elucidate the functional architecture of the human brain. However, valid statistical analysis used to identify such networks must address sources of noise in order to avoid possible confounds such as spurious correlations based on non-neuronal sources. We have developed a functional connectivity toolbox Conn ( www.nitrc.org/projects/conn ) that implements the component-based noise correction method (CompCor) strategy for physiological and other noise source reduction, additional removal of movement, and temporal covariates, temporal filtering and windowing of the residual blood oxygen level-dependent (BOLD) contrast signal, first-level estimation of multiple standard functional connectivity magnetic resonance imaging (fcMRI) measures, and second-level random-effect analysis for resting state as well as task-related data. Compared to methods that rely on global signal regression, the CompCor noise reduction method allows for interpretation of anticorrelations as there is no regression of the global signal. The toolbox implements fcMRI measures, such as estimation of seed-to-voxel and region of interest (ROI)-to-ROI functional correlations, as well as semipartial correlation and bivariate/multivariate regression analysis for multiple ROI sources, graph theoretical analysis, and novel voxel-to-voxel analysis of functional connectivity. We describe the methods implemented in the Conn toolbox for the analysis of fcMRI data, together with examples of use and interscan reliability estimates of all the implemented fcMRI measures. The results indicate that the CompCor method increases the sensitivity and selectivity of fcMRI analysis, and show a high degree of interscan reliability for many fcMRI measures.
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                Author and article information

                Journal
                Brain Sci
                Brain Sci
                brainsci
                Brain Sciences
                MDPI
                2076-3425
                12 November 2020
                November 2020
                : 10
                : 11
                : 851
                Affiliations
                [1 ]School of Medicine, Chang Gung University, Taoyuan 33302, Taiwan; cch1966@ 123456gmail.com
                [2 ]Department of Psychiatry, Chang Gung Memorial Hospital, Chiayi 61363, Taiwan
                [3 ]Department of Medical Imaging and Radiological Sciences, Chang Gung University, Taoyuan 33302, Taiwan; zlink0587@ 123456gmail.com
                [4 ]Breast Medical Center, Cheng Ching Hospital Chung Kang Branch, Taichung 40764, Taiwan; elva3079@ 123456yahoo.com.tw
                [5 ]Department of Radiology, Taichung Veterans General Hospital, Taichung 40705, Taiwan; hubt@ 123456vghtc.gov.tw
                [6 ]College of Medicine, China Medical University, Taichung 406040, Taiwan
                [7 ]Medical Imaging Research Center, Institute for Radiological Research, Chang Gung University and Chang Gung Memorial Hospital at Linkou, Taoyuan 33302, Taiwan
                Author notes
                [* ]Correspondence: jcweng@ 123456mail.cgu.edu.tw ; Tel.: +886-3-2118800 (ext. 5394)
                Author information
                https://orcid.org/0000-0001-7616-6216
                Article
                brainsci-10-00851
                10.3390/brainsci10110851
                7696512
                33198294
                dc72e191-977b-4962-9bf8-20c60d13c053
                © 2020 by the authors.

                Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license ( http://creativecommons.org/licenses/by/4.0/).

                History
                : 22 October 2020
                : 11 November 2020
                Categories
                Article

                breast cancer,chemo brain,machine learning,connectome,resting-state functional magnetic resonance imaging,generalized q-sampling imaging

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