Classification of Alzheimer disease, mild cognitive impairment, and normal cognitive status with large-scale network analysis based on resting-state functional MR imaging

Scale-integrated Network Hubs of the White Matter Structural Network

The 'human connectome' concept has been proposed to significantly increase our understanding of how functional brain states emerge from their underlying structural substrates. Especially, the network hub has been considered one of the most important topological properties to interpret a network as a complex system. However, previous structural brain connectome studies have reported network hub regions based on various nodal resolutions. We hypothesized that brain network hubs should be determined considering various nodal scales in a certain range. We tested our hypothesis using the hub strength determined by the mean of the "hubness" values over a range of nodal scales. Some regions of the precuneus, superior occipital gyrus, and superior parietal gyrus in a bilaterally symmetric fashion had a relatively higher level of hub strength than other regions. These regions had a tendency of increasing contributions to local efficiency than other regions. We proposed a methodological framework to detect network hubs considering various nodal scales in a certain range. This framework might provide a benefit in the detection of important brain regions in the network.

A Hierarchical Feature and Sample Selection Framework and Its Application for Alzheimer's Disease Diagnosis

Classification is one of the most important tasks in machine learning. Due to feature redundancy or outliers in samples, using all available data for training a classifier may be suboptimal. For example, the Alzheimer's disease (AD) is correlated with certain brain regions or single nucleotide polymorphisms (SNPs), and identification of relevant features is critical for computer-aided diagnosis. Many existing methods first select features from structural magnetic resonance imaging (MRI) or SNPs and then use those features to build the classifier. However, with the presence of many redundant features, the most discriminative features are difficult to be identified in a single step. Thus, we formulate a hierarchical feature and sample selection framework to gradually select informative features and discard ambiguous samples in multiple steps for improved classifier learning. To positively guide the data manifold preservation process, we utilize both labeled and unlabeled data during training, making our method semi-supervised. For validation, we conduct experiments on AD diagnosis by selecting mutually informative features from both MRI and SNP, and using the most discriminative samples for training. The superior classification results demonstrate the effectiveness of our approach, as compared with the rivals.

Compromised hippocampus-striatum pathway as a potential imaging biomarker of mild-traumatic brain injury and posttraumatic stress disorder

OBJECTIVES

Military service members risk acquiring posttraumatic stress disorder (PTSD) and mild-traumatic brain injury (mTBI), with high comorbidity. Owing to overlapping symptomatology in chronic mTBI or postconcussion syndrome (PCS) and PTSD, it is difficult to assess the etiology of a patient's condition without objective measures. Using resting-state functional MRI in a novel framework, we tested the hypothesis that their neural signatures are characterized by functionally hyperconnected brain regions which are less variable over time. Additionally, we predicted that such connectivities possessed the highest ability in predicting the diagnostic membership of a novel subject (top-predictors) in addition to being statistically significant.

METHODS

U.S. Army Soldiers (N = 87) with PTSD and comorbid PCS + PTSD were recruited along with combat controls. Static and dynamic functional connectivities were evaluated. Group differences were obtained in accordance with our hypothesis. Machine learning classification (MLC) was employed to determine top predictors.

RESULTS

From whole-brain connectivity, we identified the hippocampus-striatum connectivity to be significantly altered in accordance with our hypothesis. Diffusion tractography revealed compromised white-matter integrity between aforementioned regions only in the PCS + PTSD group, suggesting a structural etiology for the PCS + PTSD group rather than being an extreme subset of PTSD. Employing MLC, connectivities provided worst-case accuracy of 84% (9% more than psychological measures). Additionally, the hippocampus-striatum connectivities were found to be top predictors and thus a potential biomarker of PTSD/mTBI.

CONCLUSIONS

PTSD/mTBI are associated with hippocampal-striatal hyperconnectivity from which it is difficult to disengage, leading to a habit-like response toward episodic traumatic memories, which fits well with behavioral manifestations of combat-related PTSD/mTBI. Hum Brain Mapp 38:2843-2864, 2017. © 2017 The Authors Human Brain Mapping Published by Wiley Periodicals, Inc.

Ensemble Classification of Alzheimer's Disease and Mild Cognitive Impairment Based on Complex Graph Measures from Diffusion Tensor Images

The human brain is a complex network of interacting regions. The gray matter regions of brain are interconnected by white matter tracts, together forming one integrative complex network. In this article, we report our investigation about the potential of applying brain connectivity patterns as an aid in diagnosing Alzheimer's disease and Mild Cognitive Impairment (MCI). We performed pattern analysis of graph theoretical measures derived from Diffusion Tensor Imaging (DTI) data representing structural brain networks of 45 subjects, consisting of 15 patients of Alzheimer's disease (AD), 15 patients of MCI, and 15 healthy subjects (CT). We considered pair-wise class combinations of subjects, defining three separate classification tasks, i.e., AD-CT, AD-MCI, and CT-MCI, and used an ensemble classification module to perform the classification tasks. Our ensemble framework with feature selection shows a promising performance with classification accuracy of 83.3% for AD vs. MCI, 80% for AD vs. CT, and 70% for MCI vs. CT. Moreover, our findings suggest that AD can be related to graph measures abnormalities at Brodmann areas in the sensorimotor cortex and piriform cortex. In this way, node redundancy coefficient and load centrality in the primary motor cortex were recognized as good indicators of AD in contrast to MCI. In general, load centrality, betweenness centrality, and closeness centrality were found to be the most relevant network measures, as they were the top identified features at different nodes. The present study can be regarded as a "proof of concept" about a procedure for the classification of MRI markers between AD dementia, MCI, and normal old individuals, due to the small and not well-defined groups of AD and MCI patients. Future studies with larger samples of subjects and more sophisticated patient exclusion criteria are necessary toward the development of a more precise technique for clinical diagnosis.

Differential Effects of Brain Disorders on Structural and Functional Connectivity

Different measures of brain connectivity can be defined based on neuroimaging read-outs, including structural and functional connectivity. Neurological and psychiatric conditions are often associated with abnormal connectivity, but comparing the effects of the disease on different types of connectivity remains a challenge. In this paper, we address the problem of quantifying the relative effects of brain disease on structural and functional connectivity at a group level. Within the framework of a graph representation of connectivity, we introduce a kernel two-sample test as an effective method to assess the difference between the patients and control group. Moreover, we propose a common representation space for structural and functional connectivity networks, and a novel test statistics to quantitatively assess differential effects of the disease on different types of connectivity. We apply this approach to a dataset from BTBR mice, a murine model of Agenesis of the Corpus Callosum (ACC), a congenital disorder characterized by the absence of the main bundle of fibers connecting the two hemispheres. We used normo-callosal mice (B6) as a comparator. The application of the proposed methods to this data-set shows that the two types of connectivity can be successfully used to discriminate between BTBR and B6, meaning that both types of connectivity are affected by ACC. However, our novel test statistics shows that structural connectivity is significantly more affected than functional connectivity, consistent with the idea that functional connectivity has a robust topology that can tolerate substantial alterations in its structural connectivity substrate.

Deriving reproducible biomarkers from multi-site resting-state data: An Autism-based example

Resting-state functional Magnetic Resonance Imaging (R-fMRI) holds the promise to reveal functional biomarkers of neuropsychiatric disorders. However, extracting such biomarkers is challenging for complex multi-faceted neuropathologies, such as autism spectrum disorders. Large multi-site datasets increase sample sizes to compensate for this complexity, at the cost of uncontrolled heterogeneity. This heterogeneity raises new challenges, akin to those face in realistic diagnostic applications. Here, we demonstrate the feasibility of inter-site classification of neuropsychiatric status, with an application to the Autism Brain Imaging Data Exchange (ABIDE) database, a large (N=871) multi-site autism dataset. For this purpose, we investigate pipelines that extract the most predictive biomarkers from the data. These R-fMRI pipelines build participant-specific connectomes from functionally-defined brain areas. Connectomes are then compared across participants to learn patterns of connectivity that differentiate typical controls from individuals with autism. We predict this neuropsychiatric status for participants from the same acquisition sites or different, unseen, ones. Good choices of methods for the various steps of the pipeline lead to 67% prediction accuracy on the full ABIDE data, which is significantly better than previously reported results. We perform extensive validation on multiple subsets of the data defined by different inclusion criteria. These enables detailed analysis of the factors contributing to successful connectome-based prediction. First, prediction accuracy improves as we include more subjects, up to the maximum amount of subjects available. Second, the definition of functional brain areas is of paramount importance for biomarker discovery: brain areas extracted from large R-fMRI datasets outperform reference atlases in the classification tasks.

Prediction of long-term memory scores in MCI based on resting-state fMRI

Resting-state functional MRI (rs-fMRI) opens a window on large-scale organization of brain function. However, establishing relationships between resting-state brain activity and cognitive or clinical scores is still a difficult task, in particular in terms of prediction as would be meaningful for clinical applications such as early diagnosis of Alzheimer's disease. In this work, we employed partial least square regression under cross-validation scheme to predict episodic memory performance from functional connectivity (FC) patterns in a set of fifty-five MCI subjects for whom rs-fMRI acquisition and neuropsychological evaluation was carried out. We show that a newly introduced FC measure capturing the moments of anti-correlation between brain areas, discordance, contains key information to predict long-term memory scores in MCI patients, and performs better than standard measures of correlation to do so. Our results highlighted that stronger discordance within default mode network (DMN) areas, as well as across DMN, attentional and limbic networks, favor episodic memory performance in MCI.

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We use PLS to predict memory scores from resting-state fMRI.

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We compare prediction performance of different functional connectivity measures.

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We highlight the role of anti-correlation in memory-score prediction.

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We highlight the role of default-mode network in episodic memory.

Semi-supervised Hierarchical Multimodal Feature and Sample Selection for Alzheimer's Disease Diagnosis

Alzheimer's disease (AD) is a progressive neurodegenerative disease that impairs a patient's memory and other important mental functions. In this paper, we leverage the mutually informative and complementary features from both structural magnetic resonance imaging (MRI) and single nucleotide polymorphism (SNP) for improving the diagnosis. Due to the feature redundancy and sample outliers, direct use of all training data may lead to suboptimal performance in classification. In addition, as redundant features are involved, the most discriminative feature subset may not be identified in a single step, as commonly done in most existing feature selection approaches. Therefore, we formulate a hierarchical multimodal feature and sample selection framework to gradually select informative features and discard ambiguous samples in multiple steps. To positively guide the data manifold preservation, we utilize both labeled and unlabeled data in the learning process, making our method semi-supervised. The finally selected features and samples are then used to train support vector machine (SVM) based classification models. Our method is evaluated on 702 subjects from the Alzheimer's Disease Neuroimaging Initiative (ADNI) dataset, and the superior classification results in AD related diagnosis demonstrate the effectiveness of our approach as compared to other methods.

Novel Cortical Thickness Pattern for Accurate Detection of Alzheimer's Disease

Brain network occupies an important position in representing abnormalities in Alzheimer's disease (AD) and mild cognitive impairment (MCI). Currently, most studies only focused on morphological features of regions of interest without exploring the interregional alterations. In order to investigate the potential discriminative power of a morphological network in AD diagnosis and to provide supportive evidence on the feasibility of an individual structural network study, we propose a novel approach of extracting the correlative features from magnetic resonance imaging, which consists of a two-step approach for constructing an individual thickness network with low computational complexity. Firstly, multi-distance combination is utilized for accurate evaluation of between-region dissimilarity; and then the dissimilarity is transformed to connectivity via calculation of correlation function. An evaluation of the proposed approach has been conducted with 189 normal controls, 198 MCI subjects, and 163 AD patients using machine learning techniques. Results show that the observed correlative feature suggests significant promotion in classification performance compared with cortical thickness, with accuracy of 89.88% and area of 0.9588 under receiver operating characteristic curve. We further improved the performance by integrating both thickness and apolipoprotein E ɛ4 allele information with correlative features. New achieved accuracies are 92.11% and 79.37% in separating AD from normal controls and AD converters from non-converters, respectively. Differences between using diverse distance measurements and various correlation transformation functions are also discussed to explore an optimal way for network establishment.

A support vector machine-based method to identify mild cognitive impairment with multi-level characteristics of magnetic resonance imaging

Mild cognitive impairment (MCI) represents a transitional state between normal aging and Alzheimer's disease (AD). Non-invasive diagnostic methods are desirable to identify MCI for early therapeutic interventions. In this study, we proposed a support vector machine (SVM)-based method to discriminate between MCI patients and normal controls (NCs) using multi-level characteristics of magnetic resonance imaging (MRI). This method adopted a radial basis function (RBF) as the kernel function, and a grid search method to optimize the two parameters of SVM. The calculated characteristics, i.e., the Hurst exponent (HE), amplitude of low-frequency fluctuations (ALFF), regional homogeneity (ReHo) and gray matter density (GMD), were adopted as the classification features. A leave-one-out cross-validation (LOOCV) was used to evaluate the classification performance of the method. Applying the proposed method to the experimental data from 29 MCI patients and 33 healthy subjects, we achieved a classification accuracy of up to 96.77%, with a sensitivity of 93.10% and a specificity of 100%, and the area under the curve (AUC) yielded up to 0.97. Furthermore, the most discriminative features for classification were found to predominantly involve default-mode regions, such as hippocampus (HIP), parahippocampal gyrus (PHG), posterior cingulate gyrus (PCG) and middle frontal gyrus (MFG), and subcortical regions such as lentiform nucleus (LN) and amygdala (AMYG). Therefore, our method is promising in distinguishing MCI patients from NCs and may be useful for the diagnosis of MCI.

Relationship Induced Multi-Template Learning for Diagnosis of Alzheimer's Disease and Mild Cognitive Impairment

As shown in the literature, methods based on multiple templates usually achieve better performance, compared with those using only a single template for processing medical images. However, most existing multi-template based methods simply average or concatenate multiple sets of features extracted from different templates, which potentially ignores important structural information contained in the multi-template data. Accordingly, in this paper, we propose a novel relationship induced multi-template learning method for automatic diagnosis of Alzheimer's disease (AD) and its prodromal stage, i.e., mild cognitive impairment (MCI), by explicitly modeling structural information in the multi-template data. Specifically, we first nonlinearly register each brain's magnetic resonance (MR) image separately onto multiple pre-selected templates, and then extract multiple sets of features for this MR image. Next, we develop a novel feature selection algorithm by introducing two regularization terms to model the relationships among templates and among individual subjects. Using these selected features corresponding to multiple templates, we then construct multiple support vector machine (SVM) classifiers. Finally, an ensemble classification is used to combine outputs of all SVM classifiers, for achieving the final result. We evaluate our proposed method on 459 subjects from the Alzheimer's Disease Neuroimaging Initiative (ADNI) database, including 97 AD patients, 128 normal controls (NC), 117 progressive MCI (pMCI) patients, and 117 stable MCI (sMCI) patients. The experimental results demonstrate promising classification performance, compared with several state-of-the-art methods for multi-template based AD/MCI classification.

Hyper-connectivity of functional networks for brain disease diagnosis

Exploring structural and functional interactions among various brain regions enables better understanding of pathological underpinnings of neurological disorders. Brain connectivity network, as a simplified representation of those structural and functional interactions, has been widely used for diagnosis and classification of neurodegenerative diseases, especially for Alzheimer's disease (AD) and its early stage - mild cognitive impairment (MCI). However, the conventional functional connectivity network is usually constructed based on the pairwise correlation among different brain regions and thus ignores their higher-order relationships. Such loss of high-order information could be important for disease diagnosis, since neurologically a brain region predominantly interacts with more than one other brain regions. Accordingly, in this paper, we propose a novel framework for estimating the hyper-connectivity network of brain functions and then use this hyper-network for brain disease diagnosis. Here, the functional connectivity hyper-network denotes a network where each of its edges representing the interactions among multiple brain regions (i.e., an edge can connect with more than two brain regions), which can be naturally represented by a hyper-graph. Specifically, we first construct connectivity hyper-networks from the resting-state fMRI (R-fMRI) time series by using sparse representation. Then, we extract three sets of brain-region specific features from the connectivity hyper-networks, and further exploit a manifold regularized multi-task feature selection method to jointly select the most discriminative features. Finally, we use multi-kernel support vector machine (SVM) for classification. The experimental results on both MCI dataset and attention deficit hyperactivity disorder (ADHD) dataset demonstrate that, compared with the conventional connectivity network-based methods, the proposed method can not only improve the classification performance, but also help discover disease-related biomarkers important for disease diagnosis.

Multivariate pattern classification of pediatric Tourette syndrome using functional connectivity MRI

Tourette syndrome (TS) is a developmental neuropsychiatric disorder characterized by motor and vocal tics. Individuals with TS would benefit greatly from advances in prediction of symptom timecourse and treatment effectiveness. As a first step, we applied a multivariate method – support vector machine (SVM) classification – to test whether patterns in brain network activity, measured with resting state functional connectivity (RSFC) MRI, could predict diagnostic group membership for individuals. RSFC data from 42 children with TS (8–15 yrs) and 42 unaffected controls (age, IQ, in‐scanner movement matched) were included. While univariate tests identified no significant group differences, SVM classified group membership with ~70% accuracy (p < .001). We also report a novel adaptation of SVM binary classification that, in addition to an overall accuracy rate for the SVM, provides a confidence measure for the accurate classification of each individual. Our results support the contention that multivariate methods can better capture the complexity of some brain disorders, and hold promise for predicting prognosis and treatment outcome for individuals with TS.

Functional magnetic resonance imaging

Functional magnetic resonance imaging (fMRI) maps the spatiotemporal distribution of neural activity in the brain under varying cognitive conditions. Since its inception in 1991, blood oxygen level-dependent (BOLD) fMRI has rapidly become a vital methodology in basic and applied neuroscience research. In the clinical realm, it has become an established tool for presurgical functional brain mapping. This chapter has three principal aims. First, we review key physiologic, biophysical, and methodologic principles that underlie BOLD fMRI, regardless of its particular area of application. These principles inform a nuanced interpretation of the BOLD fMRI signal, along with its neurophysiologic significance and pitfalls. Second, we illustrate the clinical application of task-based fMRI to presurgical motor, language, and memory mapping in patients with lesions near eloquent brain areas. Integration of BOLD fMRI and diffusion tensor white-matter tractography provides a road map for presurgical planning and intraoperative navigation that helps to maximize the extent of lesion resection while minimizing the risk of postoperative neurologic deficits. Finally, we highlight several basic principles of resting-state fMRI and its emerging translational clinical applications. Resting-state fMRI represents an important paradigm shift, focusing attention on functional connectivity within intrinsic cognitive networks.

Different Scales of Cortical Organization are Selectively Targeted in the Progression to Alzheimer's Disease

Previous studies have shown that the topological organization of the cerebral cortex is altered in Alzheimer's disease (AD). However, it remains unknown whether different levels of the cortical hierarchy are homogeneously affected during disease progression, and which of these levels are mostly involved in the breakdown of metabolic (functional) connectivity. To fulfill these goals, we acquired structural magnetic resonance images (MRI) and positron emission tomography (PET) with the radiotracer 18F-fludeoxyglucose (FDG) in 29 healthy old (HO) adults, 29 amnestic mild cognitive impairment (aMCI) and 29 mild AD patients. Structural and metabolic connections were obtained from inter-regional correlations of cortical thickness and glucose consumption, respectively. Results showed that AD and HO groups differed at all levels of cortical organization (i.e. whole cortex, hemisphere, lobe and node), whereas differences among the three groups were only evident at the lobe and node levels. The correlation between structural and metabolic connectivity (F-S coupling) was also disturbed during AD progression, affecting to different connectivity scales: it decreased at the local level, revealing a progressive increase of metabolic connections in those local communities with fewer structural connections; whereas it increased at the global level, likely due to a parallel reduction of cortical thickness and glucose consumption between long-distance cortical regions. Collectively, these results reveal that different levels of cortical organization are selectively affected during the transition from normal aging to dementia, which could be helpful to track cortical dysfunctions in the progression to AD.

Vascular coupling in resting-state fMRI: evidence from multiple modalities

Resting-state functional magnetic resonance imaging (rs-fMRI) provides a potential to understand intrinsic brain functional connectivity. However, vascular effects in rs-fMRI are still not fully understood. Through multiple modalities, we showed marked vascular signal fluctuations and high-level coupling among arterial pressure, cerebral blood flow (CBF) velocity and brain tissue oxygenation at <0.08 Hz. These similar spectral power distributions were also observed in blood oxygen level-dependent (BOLD) signals obtained from six representative regions of interest (ROIs). After applying brain global, white-matter, cerebrospinal fluid (CSF) mean signal regressions and low-pass filtering (<0.08 Hz), the spectral power of BOLD signal was reduced by 55.6% to 64.9% in all ROIs (P=0.011 to 0.001). The coherence of BOLD signal fluctuations between an ROI pair within a same brain network was reduced by 9.9% to 20.0% (P=0.004 to <0.001), but a larger reduction of 22.5% to 37.3% (P=0.032 to <0.001) for one not in a same network. Global signal regression overall had the largest impact in reducing spectral power (by 52.2% to 61.7%) and coherence, relative to the other three preprocessing steps. Collectively, these findings raise a critical question of whether a large portion of rs-fMRI signals can be attributed to the vascular effects produced from upstream changes in cerebral hemodynamics.

Machine Learning of DTI Structural Brain Connectomes for Lateralization of Temporal Lobe Epilepsy

BACKGROUND AND PURPOSE

We analyzed the ability of a machine learning approach that uses diffusion tensor imaging (DTI) structural connectomes to determine lateralization of epileptogenicity in temporal lobe epilepsy (TLE).

MATERIALS AND METHODS

We analyzed diffusion tensor and 3-dimensional (3D) T1-weighted images of 44 patients with TLE (right, 15, left, 29; mean age, 33.0 ± 11.6 years) and 14 age-matched controls. We constructed a whole brain structural connectome for each subject, calculated graph theoretical network measures, and used a support vector machine (SVM) for classification among 3 groups (right TLE versus controls, left TLE versus controls, and right TLE versus left TLE) following a feature reduction process with sparse linear regression.

RESULTS

In left TLE, we found a significant decrease in local efficiency and the clustering coefficient in several brain regions, including the left posterior cingulate gyrus, left cuneus, and both hippocampi. In right TLE, the right hippocampus showed reduced nodal degree, clustering coefficient, and local efficiency. With use of the leave-one-out cross-validation strategy, the SVM classifier achieved accuracy of 75.9 to 89.7% for right TLE versus controls, 74.4 to 86.0% for left TLE versus controls, and 72.7 to 86.4% for left TLE versus right TLE.

CONCLUSION

Machine learning of graph theoretical measures from the DTI structural connectome may give support to lateralization of the TLE focus. The present good discrimination between left and right TLE suggests that, with further refinement, the classifier should improve presurgical diagnostic confidence.

Episodic memory in aspects of large-scale brain networks

Understanding human episodic memory in aspects of large-scale brain networks has become one of the central themes in neuroscience over the last decade. Traditionally, episodic memory was regarded as mostly relying on medial temporal lobe (MTL) structures. However, recent studies have suggested involvement of more widely distributed cortical network and the importance of its interactive roles in the memory process. Both direct and indirect neuro-modulations of the memory network have been tried in experimental treatments of memory disorders. In this review, we focus on the functional organization of the MTL and other neocortical areas in episodic memory. Task-related neuroimaging studies together with lesion studies suggested that specific sub-regions of the MTL are responsible for specific components of memory. However, recent studies have emphasized that connectivity within MTL structures and even their network dynamics with other cortical areas are essential in the memory process. Resting-state functional network studies also have revealed that memory function is subserved by not only the MTL system but also a distributed network, particularly the default-mode network (DMN). Furthermore, researchers have begun to investigate memory networks throughout the entire brain not restricted to the specific resting-state network (RSN). Altered patterns of functional connectivity (FC) among distributed brain regions were observed in patients with memory impairments. Recently, studies have shown that brain stimulation may impact memory through modulating functional networks, carrying future implications of a novel interventional therapy for memory impairment.

Exploring multifractal-based features for mild Alzheimer's disease classification

PURPOSE

Multifractal applications to resting state functional MRI (rs-fMRI) time series for diagnosing Alzheimer's disease (AD) are still limited. We aim to address two issues: (I) if and what multifractal features are sufficiently discriminative to detect AD from the healthy; (II) if AD classification could be further improved by combining multifractal features with traditional features in this field.

METHODS

Rs-fMRI data of 25 AD patients and 38 normal controls were analyzed. A set of multifractal features were systematically investigated. Traditional features in monofractal, linear, and network-based categories were also extracted for comparison and combination. Both support vector machines and multiple kernel learning (MKL) were used to perform classification with individual and combined features.

RESULTS

We identified a multifractal feature, Δf, which has the strongest discriminative power among all the features in our study. Moreover, we found that the classification accuracy could be significantly improved from 69% (by Δf only) to up to 76%, when nonsparse MKL is used to combine Δf with the monofractal feature, Hurst. Finally, we showed that incorporating other multifractal features, α(0), Δα and Pc, could also improve traditional-feature-based AD classification.

CONCLUSION

Our work demonstrated the potential usefulness of multifractal analysis for AD research, especially when combining with the traditional rs-fMRI features. It contributes to distinguishing AD from NC subjects. Magn Reson Med 76:259-269, 2016. © 2015 Wiley Periodicals, Inc.

Decreased effective connectivity from cortices to the right parahippocampal gyrus in Alzheimer's disease subjects

The purpose of this study was to detect effective connectivity (EC) changes in the default mode network and hippocampus network in 20 patients with Alzheimer's disease (AD) and 20 cognitively normal (CN) subjects, using multivariate Granger causality. The authors used the maximum coefficients in the multivariate autoregression model to quantitatively measure the different EC strength levels between the CN and AD groups. It was demonstrated that the EC strength difference can classify AD from CN subjects. Further, the right parahippocampal gyrus (PHP_R) showed imbalanced bidirectional EC connections. The PHP_R received weaker input connections from the neocortices, but its output connections were significantly increased in AD. These findings may provide neural physiological mechanisms for interpreting AD subjects' memory deficits during the encoding processes.

Aberrant Functional Connectivity Architecture in Alzheimer's Disease and Mild Cognitive Impairment: A Whole-Brain, Data-Driven Analysis

The purpose of our study was to investigate whether the whole-brain functional connectivity pattern exhibits disease severity-related alterations in patients with Alzheimer's disease (AD) and mild cognitive impairment (MCI). Resting-state functional magnetic resonance imaging data were acquired in 27 MCI subjects, 35 AD patients, and 27 age- and gender-matched subjects with normal cognition (NC). Interregional functional connectivity was assessed based on a predefined template which parcellated the brain into 90 regions. Altered whole-brain functional connectivity patterns were identified via connectivity comparisons between the AD and NC subjects. Finally, the relationship between functional connectivity strength and cognitive ability according to the mini-mental state examination (MMSE) was evaluated in the MCI and AD groups. Compared with the NC group, the AD group exhibited decreased functional connectivities throughout the brain. The most significantly affected regions included several important nodes of the default mode network and the temporal lobe. Moreover, changes in functional connectivity strength exhibited significant associations with disease severity-related alterations in the AD and MCI groups. The present study provides novel evidence and will facilitate meta-analysis of whole-brain analyses in AD and MCI, which will be critical to better understand the neural basis of AD.

Functional Neuroimaging: Fundamental Principles and Clinical Applications

Functional imaging modalities, such as functional magnetic resonance imaging (fMRI) and diffusion tensor imaging (DTI), are rapidly changing the scope and practice of neuroradiology. While these modalities have long been used in research, they are increasingly being used in clinical practice to enable reliable identification of eloquent cortex and white matter tracts in order to guide treatment planning and to serve as a diagnostic supplement when traditional imaging fails. An understanding of the scientific principles underlying fMRI and DTI is necessary in current radiological practice. fMRI relies on a compensatory hemodynamic response seen in cortical activation and the intrinsic discrepant magnetic properties of deoxy- and oxyhemoglobin. Neuronal activity can be indirectly visualized based on a hemodynamic response, termed neurovascular coupling. fMRI demonstrates utility in identifying areas of cortical activation (i.e., task-based activation) and in discerning areas of neuronal connectivity when used during the resting state, termed resting state fMRI. While fMRI is limited to visualization of gray matter, DTI permits visualization of white matter tracts through diffusion restriction along different axes. We will discuss the physical, statistical and physiological principles underlying these functional imaging modalities and explore new promising clinical applications.

Identifying patients with Alzheimer's disease using resting-state fMRI and graph theory

OBJECTIVE

Study of brain network on the basis of resting-state functional magnetic resonance imaging (fMRI) has provided promising results to investigate changes in connectivity among different brain regions because of diseases. Graph theory can efficiently characterize different aspects of the brain network by calculating measures of integration and segregation.

METHOD

In this study, we combine graph theoretical approaches with advanced machine learning methods to study functional brain network alteration in patients with Alzheimer's disease (AD). Support vector machine (SVM) was used to explore the ability of graph measures in diagnosis of AD. We applied our method on the resting-state fMRI data of twenty patients with AD and twenty age and gender matched healthy subjects. The data were preprocessed and each subject's graph was constructed by parcellation of the whole brain into 90 distinct regions using the automated anatomical labeling (AAL) atlas. The graph measures were then calculated and used as the discriminating features. Extracted network-based features were fed to different feature selection algorithms to choose most significant features. In addition to the machine learning approach, statistical analysis was performed on connectivity matrices to find altered connectivity patterns in patients with AD.

RESULTS

Using the selected features, we were able to accurately classify patients with AD from healthy subjects with accuracy of 100%.

CONCLUSION

Results of this study show that pattern recognition and graph of brain network, on the basis of the resting state fMRI data, can efficiently assist in the diagnosis of AD.

SIGNIFICANCE

Classification based on the resting-state fMRI can be used as a non-invasive and automatic tool to diagnosis of Alzheimer's disease.

Cognitive network neuroscience

Network science provides theoretical, computational, and empirical tools that can be used to understand the structure and function of the human brain in novel ways using simple concepts and mathematical representations. Network neuroscience is a rapidly growing field that is providing considerable insight into human structural connectivity, functional connectivity while at rest, changes in functional networks over time (dynamics), and how these properties differ in clinical populations. In addition, a number of studies have begun to quantify network characteristics in a variety of cognitive processes and provide a context for understanding cognition from a network perspective. In this review, we outline the contributions of network science to cognitive neuroscience. We describe the methodology of network science as applied to the particular case of neuroimaging data and review its uses in investigating a range of cognitive functions including sensory processing, language, emotion, attention, cognitive control, learning, and memory. In conclusion, we discuss current frontiers and the specific challenges that must be overcome to integrate these complementary disciplines of network science and cognitive neuroscience. Increased communication between cognitive neuroscientists and network scientists could lead to significant discoveries under an emerging scientific intersection known as cognitive network neuroscience.

Frequent and discriminative subnetwork mining for mild cognitive impairment classification

Recent studies on brain networks have suggested that many brain diseases, such as Alzheimer's disease and mild cognitive impairment (MCI), are related to a large-scale brain network, rather than individual brain regions. However, it is challenging to find such a network from the whole brain network due to the complexity of brain networks. In this article, the authors propose a novel method to mine the discriminative subnetworks for classifying MCI patients from healthy controls (HC). Specifically, the authors first extract a set of frequent subnetworks from each of the two groups (i.e., MCI and HC), respectively. Then, measure the discriminative ability of those frequent subnetworks using the graph kernel-based classification method and select the most discriminative subnetworks for subsequent classification. The results on the functional connectivity networks of 12 MCI and 25 HC show that this method can obtain competitive results compared with state-of-the-art methods on MCI classification.

Multimodal analysis of functional and structural disconnection in Alzheimer's disease using multiple kernel SVM

Alzheimer's disease (AD) patients exhibit alterations in the functional connectivity between spatially segregated brain regions which may be related to both local gray matter (GM) atrophy as well as a decline in the fiber integrity of the underlying white matter tracts. Machine learning algorithms are able to automatically detect the patterns of the disease in image data, and therefore, constitute a suitable basis for automated image diagnostic systems. The question of which magnetic resonance imaging (MRI) modalities are most useful in a clinical context is as yet unresolved. We examined multimodal MRI data acquired from 28 subjects with clinically probable AD and 25 healthy controls. Specifically, we used fiber tract integrity as measured by diffusion tensor imaging (DTI), GM volume derived from structural MRI, and the graph-theoretical measures 'local clustering coefficient' and 'shortest path length' derived from resting-state functional MRI (rs-fMRI) to evaluate the utility of the three imaging methods in automated multimodal image diagnostics, to assess their individual performance, and the level of concordance between them. We ran the support vector machine (SVM) algorithm and validated the results using leave-one-out cross-validation. For the single imaging modalities, we obtained an area under the curve (AUC) of 80% for rs-fMRI, 87% for DTI, and 86% for GM volume. When it came to the multimodal SVM, we obtained an AUC of 82% using all three modalities, and 89% using only DTI measures and GM volume. Combined multimodal imaging data did not significantly improve classification accuracy compared to the best single measures alone.

Using regional homogeneity to reveal altered spontaneous activity in patients with mild cognitive impairment

Most patients with mild cognitive impairment (MCI) are thought to be in an early stage of Alzheimer's disease (AD). Resting-state functional magnetic resonance imaging reflects spontaneous brain activity and/or the endogenous/background neurophysiological process of the human brain. Regional homogeneity (ReHo) rapidly maps regional brain activity across the whole brain. In the present study, we used the ReHo index to explore whole brain spontaneous activity pattern in MCI. Our results showed that MCI subjects displayed an increased ReHo index in the paracentral lobe, precuneus, and postcentral and a decreased ReHo index in the medial temporal gyrus and hippocampus. Impairments in the medial temporal gyrus and hippocampus may serve as important markers distinguishing MCI from healthy aging. Moreover, the increased ReHo index observed in the postcentral and paracentral lobes might indicate compensation for the cognitive function losses in individuals with MCI.

Brain spontaneous fluctuations in sensorimotor regions were directly related to eyes open and eyes closed: evidences from a machine learning approach

Previous studies have demonstrated that the difference between resting-state brain activations depends on whether the subject was eyes open (EO) or eyes closed (EC). However, whether the spontaneous fluctuations are directly related to these two different resting states are still largely unclear. In the present study, we acquired resting-state functional magnetic resonance imaging data from 24 healthy subjects (11 males, 20.17 ± 2.74 years) under the EO and EC states. The amplitude of the spontaneous brain activity in low-frequency band was subsequently investigated by using the metric of fractional amplitude of low frequency fluctuation (fALFF) for each subject under each state. A support vector machine (SVM) analysis was then applied to evaluate whether the category of resting states could be determined from the brain spontaneous fluctuations. We demonstrated that these two resting states could be decoded from the identified pattern of brain spontaneous fluctuations, predominantly based on fALFF in the sensorimotor module. Specifically, we observed prominent relationships between increased fALFF for EC and decreased fALFF for EO in sensorimotor regions. Overall, the present results indicate that a SVM performs well in the discrimination between the brain spontaneous fluctuations of distinct resting states and provide new insight into the neural substrate of the resting states during EC and EO.

The effects of pediatric epilepsy on a language connectome

This study introduces a new approach for assessing the effects of pediatric epilepsy on a language connectome. Two novel data-driven network construction approaches are presented. These methods rely on connecting different brain regions using either extent or intensity of language related activations as identified by independent component analysis of fMRI. An auditory word definition decision task paradigm was used to activate the language network for 29 patients and 30 controls. Evaluations illustrated that pediatric epilepsy is associated with a network efficiency reduction. Patients showed a propensity to inefficiently use the whole brain network to perform the language task; whereas, controls seemed to efficiently use smaller segregated network components to achieve the same task. To explain the causes of the decreased efficiency, graph theoretical analysis was performed. The analysis revealed substantial global network feature differences between the patients and controls for the extent of activation network. It also showed that for both subject groups the language network exhibited small-world characteristics; however, the patient's extent of activation network showed a tendency toward randomness. It was also shown that the intensity of activation network displayed ipsilateral hub reorganization on the local level. We finally showed that a clustering scheme was able to fairly separate the subjects into their respective patient or control groups. The clustering was initiated using local and global nodal measurements. Compared to the intensity of activation network, the extent of activation network clustering demonstrated better precision. This ascertained that the network differences presented by the networks were associated with pediatric epilepsy.

Aberrant functional connectivity in Papez circuit correlates with memory performance in cognitively intact middle-aged APOE4 carriers

The main objective of this study is to detect the early changes in resting-state Papez circuit functional connectivity using the hippocampus as the seed, and to determine the associations between altered functional connectivity (FC) and the episodic memory performance in cognitively intact middle-aged apolipoprotein E4 (APOE4) carriers who are at risk of Alzheimer's disease (AD). Forty-six cognitively intact, middle-aged participants, including 20 APOE4 carriers and 26 age-, sex-, and education-matched noncarriers were studied. The resting-state FC of the hippocampus (HFC) was compared between APOE4 carriers and noncarriers. APOE4 carriers showed significantly decreased FC in brain areas that involve learning and memory functions, including the frontal, cingulate, thalamus and basal ganglia regions. Multiple linear regression analysis showed significant correlations between HFC and the episodic memory performance. Conjunction analysis between neural correlates of memory and altered HFC showed the overlapping regions, especially the subcortical regions such as thalamus, caudate nucleus, and cingulate cortices involved in the Papez circuit. Thus, changes in connectivity in the Papez circuit may be used as an early risk detection for AD.

Classification of cirrhotic patients with or without minimal hepatic encephalopathy and healthy subjects using resting-state attention-related network analysis

Background

Attention deficit is an early and key characteristic of minimal hepatic encephalopathy (MHE) and has been used as indicator for MHE detection. The aim of this study is to classify the cirrhotic patients with or without MHE (NMHE) and healthy controls (HC) using the resting-state attention-related brain network analysis.

Methods and Findings

Resting-state fMRI was administrated to 20 MHE patients, 21 NMHE patients, and 17 HCs. Three attention-related networks, including dorsal attention network (DAN), ventral attention network (VAN), and default mode network (DMN), were obtained by independent component analysis. One-way analysis of covariance was performed to determine the regions of interest (ROIs) showing significant functional connectivity (FC) change. With FC strength of ROIs as indicators, Linear Discriminant Analysis (LDA) was conducted to differentiate MHE from HC or NMHE. Across three groups, significant FC differences were found within DAN (left superior/inferior parietal lobule and right inferior parietal lobule), VAN (right superior parietal lobule), and DMN (bilateral posterior cingulate gyrus and precuneus, and left inferior parietal lobule). With FC strength of ROIs from three networks as indicators, LDA yielded 94.6% classification accuracy between MHE and HC (100% sensitivity and 88.2% specificity) and 85.4% classification accuracy between MHE and NMHE (90.0% sensitivity and 81.0% specificity).

Conclusions

Our results suggest that the resting-state attention-related brain network analysis can be useful in classification of subjects with MHE, NMHE, and HC and may provide a new insight into MHE detection.

Integration of network topological and connectivity properties for neuroimaging classification

Rapid advances in neuroimaging techniques have provided an efficient and noninvasive way for exploring the structural and functional connectivity of the human brain. Quantitative measurement of abnormality of brain connectivity in patients with neurodegenerative diseases, such as mild cognitive impairment (MCI) and Alzheimer's disease (AD), have also been widely reported, especially at a group level. Recently, machine learning techniques have been applied to the study of AD and MCI, i.e., to identify the individuals with AD/MCI from the healthy controls (HCs). However, most existing methods focus on using only a single property of a connectivity network, although multiple network properties, such as local connectivity and global topological properties, can potentially be used. In this paper, by employing multikernel based approach, we propose a novel connectivity based framework to integrate multiple properties of connectivity network for improving the classification performance. Specifically, two different types of kernels (i.e., vector-based kernel and graph kernel) are used to quantify two different yet complementary properties of the network, i.e., local connectivity and global topological properties. Then, multikernel learning (MKL) technique is adopted to fuse these heterogeneous kernels for neuroimaging classification. We test the performance of our proposed method on two different data sets. First, we test it on the functional connectivity networks of 12 MCI and 25 HC subjects. The results show that our method achieves significant performance improvement over those using only one type of network property. Specifically, our method achieves a classification accuracy of 91.9%, which is 10.8% better than those by single network-property-based methods. Then, we test our method for gender classification on a large set of functional connectivity networks with 133 infants scanned at birth, 1 year, and 2 years, also demonstrating very promising results.

Alzheimer's disease detection in brain magnetic resonance images using multiscale fractal analysis

We present a new automated system for the detection of brain magnetic resonance images (MRI) affected by Alzheimer's disease (AD). The MRI is analyzed by means of multiscale analysis (MSA) to obtain its fractals at six different scales. The extracted fractals are used as features to differentiate healthy brain MRI from those of AD by a support vector machine (SVM) classifier. The result of classifying 93 brain MRIs consisting of 51 images of healthy brains and 42 of brains affected by AD, using leave-one-out cross-validation method, yielded 99.18% ± 0.01 classification accuracy, 100% sensitivity, and 98.20% ± 0.02 specificity. These results and a processing time of 5.64 seconds indicate that the proposed approach may be an efficient diagnostic aid for radiologists in the screening for AD.

Identification of neural connectivity signatures of autism using machine learning

Alterations in interregional neural connectivity have been suggested as a signature of the pathobiology of autism. There have been many reports of functional and anatomical connectivity being altered while individuals with autism are engaged in complex cognitive and social tasks. Although disrupted instantaneous correlation between cortical regions observed from functional MRI is considered to be an explanatory model for autism, the causal influence of a brain area on another (effective connectivity) is a vital link missing in these studies. The current study focuses on addressing this in an fMRI study of Theory-of-Mind (ToM) in 15 high-functioning adolescents and adults with autism and 15 typically developing control participants. Participants viewed a series of comic strip vignettes in the MRI scanner and were asked to choose the most logical end to the story from three alternatives, separately for trials involving physical and intentional causality. The mean time series, extracted from 18 activated regions of interest, were processed using a multivariate autoregressive model (MVAR) to obtain the causality matrices for each of the 30 participants. These causal connectivity weights, along with assessment scores, functional connectivity values, and fractional anisotropy obtained from DTI data for each participant, were submitted to a recursive cluster elimination based support vector machine classifier to determine the accuracy with which the classifier can predict a novel participant's group membership (autism or control). We found a maximum classification accuracy of 95.9% with 19 features which had the highest discriminative ability between the groups. All of the 19 features were effective connectivity paths, indicating that causal information may be critical in discriminating between autism and control groups. These effective connectivity paths were also found to be significantly greater in controls as compared to ASD participants and consisted predominantly of outputs from the fusiform face area and middle temporal gyrus indicating impaired connectivity in ASD participants, particularly in the social brain areas. These findings collectively point toward the fact that alterations in causal connectivity in the brain in ASD could serve as a potential non-invasive neuroimaging signature for autism.

Late-life depression, mild cognitive impairment and hippocampal functional network architecture

Late-life depression (LLD) and amnestic mild cognitive impairment (aMCI) are associated with medial temporal lobe structural abnormalities. However, the hippocampal functional connectivity (HFC) similarities and differences related to these syndromes when they occur alone or coexist are unclear. Resting-state functional connectivity MRI (R-fMRI) technique was used to measure left and right HFC in 72 elderly participants (LLD [n = 18], aMCI [n = 17], LLD with comorbid aMCI [n = 12], and healthy controls [n = 25]). The main and interactive relationships of LLD and aMCI on the HFC networks were determined, after controlling for age, gender, education and gray matter volumes. The effects of depressive symptoms and episodic memory deficits on the hippocampal functional connections also were assessed. While increased and decreased left and right HFC with several cortical and subcortical structures involved in mood regulation were related to LLD, aMCI was associated with globally diminished connectivity. Significant LLD-aMCI interactions on the right HFC networks were seen in the brain regions critical for emotion processing and higher-order cognitive functions. In the interactive brain regions, LLD and aMCI were associated with diminished hippocampal functional connections, whereas the comorbid group demonstrated enhanced connectivity. Main and interactive effects of depressive symptoms and episodic memory performance were also associated with bilateral HFC network abnormalities. In conclusion, these findings indicate that discrete hippocampal functional network abnormalities are associated with LLD and aMCI when they occur alone. However, when these conditions coexist, more pronounced vulnerabilities of the hippocampal networks occur, which may be a marker of disease severity and impending cognitive decline. By utilizing R-fMRI technique, this study provides novel insights into the neural mechanisms underlying LLD and aMCI in the functional network level.

Topological graph kernel on multiple thresholded functional connectivity networks for mild cognitive impairment classification

Recently, brain connectivity networks have been used for classification of Alzheimer's disease and mild cognitive impairment (MCI) from normal controls (NC). In typical connectivity-networks-based classification approaches, local measures of connectivity networks are first extracted from each region-of-interest as network features, which are then concatenated into a vector for subsequent feature selection and classification. However, some useful structural information of network, especially global topological information, may be lost in this type of approaches. To address this issue, in this article, we propose a connectivity-networks-based classification framework to identify accurately the MCI patients from NC. The core of the proposed method involves the use of a new graph-kernel-based approach to measure directly the topological similarity between connectivity networks. We evaluate our method on functional connectivity networks of 12 MCI and 25 NC subjects. The experimental results show that our proposed method achieves a classification accuracy of 91.9%, a sensitivity of 100.0%, a balanced accuracy of 94.0%, and an area under receiver operating characteristic curve of 0.94, demonstrating a great potential in MCI classification, based on connectivity networks. Further connectivity analysis indicates that the connectivity of the selected brain regions is different between MCI patients and NC, that is, MCI patients show reduced functional connectivity compared with NC, in line with the findings reported in the existing studies.

Multivariate classification of blood oxygen level-dependent FMRI data with diagnostic intention: a clinical perspective

SUMMARY

There has been a recent upsurge of reports about applications of pattern-recognition techniques from the field of machine learning to functional MR imaging data as a diagnostic tool for systemic brain disease or psychiatric disorders. Entities studied include depression, schizophrenia, attention deficit hyperactivity disorder, and neurodegenerative disorders like Alzheimer dementia. We review these recent studies which-despite the optimism from some articles-predominantly constitute explorative efforts at the proof-of-concept level. There is some evidence that, in particular, support vector machines seem to be promising. However, the field is still far from real clinical application, and much work has to be done regarding data preprocessing, model optimization, and validation. Reporting standards are proposed to facilitate future meta-analyses or systematic reviews.

Magnetic resonance imaging for diagnosis of early Alzheimer's disease

A major challenge for neuroimaging is to contribute to the early diagnosis of Alzheimer's disease (AD). In particular, magnetic resonance imaging (MRI) allows detecting different types of structural and functional abnormalities at an early stage of the disease. Anatomical MRI is the most widely used technique and provides local and global measures of atrophy. The recent diagnostic criteria of "mild cognitive impairment due to AD" include hippocampal atrophy, which is considered a marker of neuronal injury. Advanced image analysis techniques generate automatic and reproducible measures both in the hippocampus and throughout the whole brain. Recent modalities such as diffusion-tensor imaging and resting-state functional MRI provide additional measures that could contribute to the early diagnosis but require further validation.

Modular reorganization of brain resting state networks and its independent validation in Alzheimer's disease patients

Previous studies have demonstrated disruption in structural and functional connectivity occurring in the Alzheimer's Disease (AD). However, it is not known how these disruptions alter brain network reorganization. With the modular analysis method of graph theory, and datasets acquired by the resting-state functional connectivity MRI (R-fMRI) method, we investigated and compared the brain organization patterns between the AD group and the cognitively normal control (CN) group. Our main finding is that the largest homotopic module (defined as the insula module) in the CN group was broken down to the pieces in the AD group. Specifically, it was discovered that the eight pairs of the bilateral regions (the opercular part of inferior frontal gyrus, area triangularis, insula, putamen, globus pallidus, transverse temporal gyri, superior temporal gyrus, and superior temporal pole) of the insula module had lost symmetric functional connection properties, and the corresponding gray matter concentration (GMC) was significant lower in AD group. We further quantified the functional connectivity changes with an index (index A) and structural changes with the GMC index in the insula module to demonstrate their great potential as AD biomarkers. We further validated these results with six additional independent datasets (271 subjects in six groups). Our results demonstrated specific underlying structural and functional reorganization from young to old, and for diseased subjects. Further, it is suggested that by combining the structural GMC analysis and functional modular analysis in the insula module, a new biomarker can be developed at the single-subject level.

Graph analysis of the human connectome: promise, progress, and pitfalls

The human brain is a complex, interconnected network par excellence. Accurate and informative mapping of this human connectome has become a central goal of neuroscience. At the heart of this endeavor is the notion that brain connectivity can be abstracted to a graph of nodes, representing neural elements (e.g., neurons, brain regions), linked by edges, representing some measure of structural, functional or causal interaction between nodes. Such a representation brings connectomic data into the realm of graph theory, affording a rich repertoire of mathematical tools and concepts that can be used to characterize diverse anatomical and dynamical properties of brain networks. Although this approach has tremendous potential - and has seen rapid uptake in the neuroimaging community - it also has a number of pitfalls and unresolved challenges which can, if not approached with due caution, undermine the explanatory potential of the endeavor. We review these pitfalls, the prevailing solutions to overcome them, and the challenges at the forefront of the field.

Meta-analysis of functional network alterations in Alzheimer's disease: toward a network biomarker

The increasing prevalence of Alzheimer's disease (AD) emphasizes the need for sensitive biomarkers. Memory, a core deficit in AD, involves the interaction of distributed brain networks. We propose that biomarkers should be sought at the level of disease-specific disturbances in large-scale neural networks instead of alterations in a single brain region. This is the first voxel-level quantitative meta-analysis of default mode connectivity and task-related activation in 1196 patients and 1255 controls to detect robust changes in components of large-scale neural networks. We show that with disease progression, specific components of networks are widespread altered. The medial parietal regions and the subcortical areas are differentially affected depending on the disease stage. Specific compensatory mechanisms are only seen in the earliest stages, before symptoms are evident, and could become a functional network biomarker or target for interventions. These results underline the need to further fine-grain these networks spatially and temporally across disease stages. To conclude, AD should indeed be considered as a syndrome involving neural network disruption before cognitive deficits are detectable.

A probabilistic model of functional brain connectivity network for discovering novel biomarkers

Graph theoretical analyses of functional brain connectivity networks have been limited to a static view of brain activities over the entire timeseries. In this paper, we propose a new probabilistic model of the functional brain connectivity network, the strong-edge model, which incorporates the temporal fluctuation of neurodynamics. We also introduce a systematic approach to identifying biomarkers based on network characteristics that quantitatively describe the organization of the brain network. The evaluation results of the proposed strong-edge network model is quite promising. The biomarkers derived from the strong-edge model have achieved much higher prediction accuracy of 89% (ROCAUC: 0.96) in distinguishing depression subjects from healthy controls in comparison with the conventional network model (accuracy: 76%, ROC-AUC: 0.87). These novel biomarkers have the high potential of being applied clinically in diagnosing neurological and psychiatric brain diseases with noninvasive neuroimaging technologies.

Neurometrics of intrinsic connectivity networks at rest using fMRI: retest reliability and cross-validation using a meta-level method

Functional images of the resting brain can be empirically parsed into intrinsic connectivity networks (ICNs) which closely resemble patterns of evoked task-based brain activity and which have a biological and genetic basis. Recently, ICNs have become popular for investigating brain functioning and brain-behavior relationships. However, the replicability and neurometrics of these networks are only beginning to be reported. Using a meta-level independent component analysis (ICA), we produced ICNs from three data sets collected from two samples of healthy adults. The ICNs from our data sets demonstrated robust and independent replication of 12 intrinsic networks that reflected 17 canonical, task-based, brain networks. We found within-subject reliability of ICNs was modest overall, but ranged from poor to good, and that voxels with the highest measured connectivity rarely had the highest reliability. Networks associated with executive functions, visuospatial reasoning, motor coordination, speech and audition, default mode, vision, and interoception showed moderate to high group-level reproducibility and replicability. However, only the first four of these networks also showed fair or better within-subject reliability over time. Our findings highlight the replicability of ICNs across data sets, the range of within-subject neurometrics across different networks, and the shared characteristics between resting and task-based networks.

Disrupted functional brain connectome in individuals at risk for Alzheimer's disease

BACKGROUND

Alzheimer's disease disrupts the topological architecture of whole-brain connectivity (i.e., the connectome); however, whether this disruption is present in amnestic mild cognitive impairment (aMCI), the prodromal stage of Alzheimer's disease, remains largely unknown.

METHODS

We employed resting-state functional magnetic resonance imaging and graph theory approaches to systematically investigate the topological organization of the functional connectome of 37 patients with aMCI and 47 healthy control subjects. Frequency-dependent brain networks were derived from wavelet-based correlations of both high- and low-resolution parcellation units.

RESULTS

In the frequency interval .031-.063 Hz, the aMCI patients showed an overall decreased functional connectivity of their brain connectome compared with control subjects. Further graph theory analyses of this frequency band revealed an increased path length of the connectome in the aMCI group. Moreover, the disease targeted several key nodes predominantly in the default-mode regions and key links primarily in the intramodule connections within the default-mode network and the intermodule connections among different functional systems. Intriguingly, the topological aberrations correlated with the patients' memory performance and differentiated individuals with aMCI from healthy elderly individuals with a sensitivity of 86.5% and a specificity of 85.1%. Finally, we demonstrated a high reproducibility of our findings across different large-scale parcellation schemes and validated the test-retest reliability of our network-based approaches.

CONCLUSIONS

This study demonstrates a disruption of whole-brain topological organization of the functional connectome in aMCI. Our finding provides novel insights into the pathophysiological mechanism of aMCI and highlights the potential for using connectome-based metrics as a disease biomarker.

Functional connectivity of the cortical swallowing network in humans

INTRODUCTION

Coherent fluctuations of blood oxygenation level dependent (BOLD) signal have been referred to as "functional connectivity" (FC). Our aim was to systematically characterize FC of underlying neural network involved in swallowing, and to evaluate its reproducibility and modulation during rest or task performance.

METHODS

Activated seed regions within known areas of the cortical swallowing network (CSN) were independently identified in 16 healthy volunteers. Subjects swallowed using a paradigm driven protocol, and the data analyzed using an event-related technique. Then, in the same 16 volunteers, resting and active state data were obtained for 540 s in three conditions: 1) swallowing task; 2) control visual task; and 3) resting state; all scans were performed twice. Data was preprocessed according to standard FC pipeline. We determined the correlation coefficient values of member regions of the CSN across the three aforementioned conditions and compared between two sessions using linear regression. Average FC matrices across conditions were then compared.

RESULTS

Swallow activated twenty-two positive BOLD and eighteen negative BOLD regions distributed bilaterally within cingulate, insula, sensorimotor cortex, prefrontal and parietal cortices. We found that: 1) Positive BOLD regions were highly connected to each other during all test conditions while negative BOLD regions were tightly connected among themselves; 2) Positive and negative BOLD regions were anti-correlated at rest and during task performance; 3) Across all three test conditions, FC among the regions was reproducible (r>0.96, p<10(-5)); and 4) The FC of sensorimotor region to other regions of the CSN increased during swallowing scan.

CONCLUSIONS

1) Swallow activated cortical substrates maintain a consistent pattern of functional connectivity; 2) FC of sensorimotor region is significantly higher during swallow scan than that observed during a non-swallow visual task or at rest.