Functional Brain Network Estimation Research Articles

Wavelet transform-based frequency self-adaptive model for functional brain network.

The accurate estimation of functional brain networks is essential for comprehending the intricate relationships between different brain regions. Conventional methods such as Pearson Correlation and Sparse Representation often fail to uncover concealed information within diverse frequency bands. To address this limitation, we introduce a novel frequency-adaptive model based on wavelet transform, enabling selective capture of highly correlated frequency band sequences. Our approach involves decomposing the original time-domain signal from resting-state functional magnetic resonance imaging into distinct frequency domains, thus constructing an adjacency matrix that offers enhanced separation of features across brain regions. Comparative analysis demonstrates the superior performance of our proposed model over conventional techniques, showcasing improved clarity and distinctiveness. Notably, we achieved the highest accuracy rate of 89.01% using Sparse Representation based on Wavelet Transform, outperforming Pearson Correlation based on Wavelet Transform with an accuracy of 81.32%. Importantly, our method optimizes raw data without significantly altering feature topology, rendering it adaptable to various functional brain network estimation approaches. Overall, this innovation holds the potential to advance the understanding of brain function and furnish more accurate samples for future research and clinical applications.

Adaptive noise depression for functional brain network estimation.

Autism spectrum disorder (ASD) is one common psychiatric illness that manifests in neurological and developmental disorders, which can last throughout a person's life and cause challenges in social interaction, communication, and behavior. Since the standard ASD diagnosis is highly based on the symptoms of the disease, it is difficult to make an early diagnosis to take the best cure opportunity. Compared to the standard methods, functional brain network (FBN) could reveal the statistical dependence among neural architectures in brains and provide potential biomarkers for the early neuro-disease diagnosis and treatment of some neurological disorders. However, there are few FBN estimation methods that take into account the noise during the data acquiring process, resulting in poor quality of FBN and thus poor diagnosis results. To address such issues, we provide a brand-new approach for estimating FBNs under a noise modeling framework. In particular, we introduce a noise term to model the representation errors and impose a regularizer to incorporate noise prior into FBNs estimation. More importantly, the proposed method can be formulated as conducting traditional FBN estimation based on transformed fMRI data, which means the traditional methods can be elegantly modified to support noise modeling. That is, we provide a plug-and-play noise module capable of being embedded into different methods and adjusted according to different noise priors. In the end, we conduct abundant experiments to identify ASD from normal controls (NCs) based on the constructed FBNs to illustrate the effectiveness and flexibility of the proposed method. Consequently, we achieved up to 13.04% classification accuracy improvement compared with the baseline methods.

Estimating sparse functional brain networks with spatial constraints for MCI identification.

Functional brain network (FBN), estimated with functional magnetic resonance imaging (fMRI), has become a potentially useful way of diagnosing neurological disorders in their early stages by comparing the connectivity patterns between different brain regions across subjects. However, this depends, to a great extent, on the quality of the estimated FBNs, indicating that FBN estimation is a key step for the subsequent task of disorder identification. In the past decades, researchers have developed many methods to estimate FBNs, including Pearson’s correlation and (regularized) partial correlation, etc. Despite their widespread applications in current studies, most of the existing methods estimate FBNs only based on the dependency between the measured blood oxygen level dependent (BOLD) signals, which ignores spatial relationship of signals associated with different brain regions. Due to the space and material parsimony principle of our brain, we believe that the spatial distance between brain regions has an important influence on FBN topology. Therefore, in this paper, we assume that spatially neighboring brain regions tend to have stronger connections and/or share similar connections with others; based on this assumption, we propose two novel methods to estimate FBNs by incorporating the information of brain region distance into the estimation model. To validate the effectiveness of the proposed methods, we use the estimated FBNs to identify subjects with mild cognitive impairment (MCI) from normal controls (NCs). Experimental results show that the proposed methods are better than the baseline methods in the sense of MCI identification accuracy.

Group Similarity Constraint Functional Brain Network Estimation for Mild Cognitive Impairment Classification.

Functional brain network (FBN) provides an effective biomarker for understanding brain activation patterns and a diagnostic criterion for neurodegenerative diseases detections. Unfortunately, it remains challenges to estimate the biologically meaningful or discriminative FBNs accurately, because of the poor quality of functional magnetic resonance imaging data or our limited understanding of human brain. In this study, a novel FBN estimation model based on group similarity prior was proposed. In particular, we extended the FBN estimation model to tensor form and incorporated the tensor trace-norm regularizer to formulate the group similarity constraint. To verify the proposed method, we conducted experiments on identifying mild cognitive impairments (MCIs) from normal controls (NCs) based on the estimated FBNs. Experimental results illustrated that our method is effective in modeling FBNs. Consequently, we achieved 91.97% classification accuracy, outperforming the state-of-the-art methods. The post hoc analysis further demonstrated that more biologically meaningful functional brain connections were obtained using our proposed method.

Self-calibrated brain network estimation and joint non-convex multi-task learning for identification of early Alzheimer's disease.

Detection of early stages of Alzheimer's disease (AD) (i.e., mild cognitive impairment (MCI)) is important to maximize the chances to delay or prevent progression to AD. Brain connectivity networks inferred from medical imaging data have been commonly used to distinguish MCI patients from normal controls (NC). However, existing methods still suffer from limited performance, and classification remains mainly based on single modality data. This paper proposes a new model to automatically diagnosing MCI (early MCI (EMCI) and late MCI (LMCI)) and its earlier stages (i.e., significant memory concern (SMC)) by combining low-rank self-calibrated functional brain networks and structural brain networks for joint multi-task learning. Specifically, we first develop a new functional brain network estimation method. We introduce data quality indicators for self-calibration, which can improve data quality while completing brain network estimation, and perform correlation analysis combined with low-rank structure. Second, functional and structural connected neuroimaging patterns are integrated into our multi-task learning model to select discriminative and informative features for fine MCI analysis. Different modalities are best suited to undertake distinct classification tasks, and similarities and differences among multiple tasks are best determined through joint learning to determine most discriminative features. The learning process is completed by non-convex regularizer, which effectively reduces the penalty bias of trace norm and approximates the original rank minimization problem. Finally, the most relevant disease features classified using a support vector machine (SVM) for MCI identification. Experimental results show that our method achieves promising performance with high classification accuracy and can effectively discriminate between different sub-stages of MCI.

Functional Brain Network Estimation with Human-Guided Modularity Representation

Abstract Functional brain network (FBN) has been demonstrated with remarkable advancements in understanding the human brain organization architectures and diagnosis disorders. Thus, it is crucial to accurately estimate both biologically meaningful and discriminative FBNs. Although several FBN estimation approaches have been proposed, the accurate estimation of FBN is still an open field due to the high complexity of human brains and the poor quality of the observed data. Moreover, most existing works fail in incorporating domain expert knowledge. In this paper, we stress the importance of both modular topology prior and domain expert knowledge for FBN estimation, and a human-guided modular representation (MR) FBN estimation framework is proposed. Specifically, we depict the intra- and intermodular structures of FBNs under domain expert knowledge guidance and characterize them with an adversarial low-rank constraint. An efficient ConCave-Convex Procedure (CCCP) is applied to estimate FBN, which is then verified on the Chronic Tinnitus Identification task. The proposed methods achieves a 92.11% classification accuracy, significantly outperformed the state-of-the-art methods. Our method also tends to provide more biologically meaningful functional connections, which benefit for both basic and clinical neuroscience studies.

Functional Brain Network Learning Based on Spatial Similarity for Brain Disorders Identification

Functional brain network (FBN) measures based on functional magnetic resonance imaging (fMRI) data, has become important biomarkers for early diagnosis and prediction of clinical outcomes in neurological diseases, such as Alzheimer’s diseases (AD) and its prodromal state (i.e., Mild cognitive impairment, MCI). In the past decades, researchers have developed numbers of approaches for FBN estimation, including Pearson’s correction (PC), sparse representation (SR), and so on. Despite their popularity and wide applications in current studies, most of the approaches for FBN estimation only consider the dependency between the measured blood oxygen level dependent (BOLD) time series, but ignore the spatial relationships between pairs of brain regions. In practice, the strength of functional connection between brain regions will decrease as their distance increases. Inspired by this, we proposed a new approach for FBN estimation based on the assumption that the closer brain regions tend to share stronger relationships or similarities. To verify the effectiveness of the proposed method, we conduct experiments on a public dataset to identify the patients with MCIs from health controls (HCs) using the estimated FBNs. Experimental results demonstrate that the proposed approach yields statistically significant improvement in seven performance metrics over using the baseline methods.

Toward a Better Estimation of Functional Brain Network for Mild Cognitive Impairment Identification: A Transfer Learning View.

Mild cognitive impairment (MCI) is an intermediate stage of brain cognitive decline, associated with increasing risk of developing Alzheimer's disease (AD). It is believed that early treatment of MCI could slow down the progression of AD, and functional brain network (FBN) could provide potential imaging biomarkers for MCI diagnosis and response to treatment. However, there are still some challenges to estimate a "good" FBN, particularly due to the poor quality and limited quantity of functional magnetic resonance imaging (fMRI) data from the target domain (i.e., MCI study). Inspired by the idea of transfer learning, we attempt to transfer information in high-quality data from source domain (e.g., human connectome project in this paper) into the target domain towards a better FBN estimation, and propose a novel method, namely NERTL (Network Estimation via Regularized Transfer Learning). Specifically, we first construct a high-quality network "template" based on the source data, and then use the template to guide or constrain the target of FBN estimation by a weighted l1-norm regularizer. Finally, we conduct experiments to identify subjects with MCI from normal controls (NCs) based on the estimated FBNs. Despite its simplicity, our proposed method is more effective than the baseline methods in modeling discriminative FBNs, as demonstrated by the superior MCI classification accuracy of 82.4% and the area under curve (AUC) of 0.910.

Low Rank Self-calibrated Brain Network Estimation and Autoweighted Centralized Multi-Task Learning for Early Mild Cognitive Impairment Diagnosis.

Detection of mild cognitive impairment (MCI) is important, and appropriate interventions can be taken to delay or prevent its progression to Alzheimer's disease (AD). The construction of brain networks based on brain image data to depict the interaction of brain functions or structures at the level of brain connections has been widely used to identify individuals with MCI/AD from the normal control (NC). Exploring the structural and functional connections and interactions between brain regions is beneficial to detect MCI. For this reason, we propose a new model for automatic MCI diagnosis based on this information. Firstly, a new functional brain network estimation method is proposed. Self-calibration is introduced using quality indicators, and functional brain network estimation is performed at the same time. Then we integrate the functional and structural connected neuroimaging patterns into our multitask learning model to select informative feature. By identifying synergies and differences between different tasks, the most discriminative features are determined. Finally, the most relevant features are sent to the support vector machine classifier for diagnosis and identification of MCI. The experimental results based on the public Alzheimer's disease neuroimaging (ADNI) show that our method can effectively diagnose different stages of MCI and assist the physician to improve the MCI diagnostic accuracy. At the same time, compared with the existing classification methods, the proposed method achieves relatively high classification accuracy. In addition, it can identify the most discriminative brain regions. These findings suggest that our approach not only improves classification performance, but also successfully identifies important biomarkers associated with disease.

Functional Brain Network Estimation With Time Series Self-Scrubbing.

Functional brain network (FBN) is becoming an increasingly important measurement for exploring cerebral mechanisms and mining informative biomarkers that assist diagnosis of some neurodegenerative disorders. Despite its effectiveness to discover valuable hidden patterns in the human brain, the estimated FBNs are often heavily influenced by the quality of the observed data (e.g., blood oxygen level dependent signal series). In practice, a preprocessing pipeline is usually employed for improving data quality. With this in mind, some data points (volumes or time course in the time series) are still not clean enough, due to artifacts including spurious resting-state processes (head movement, mind-wandering). Therefore, not all volumes in the fMRI time series can contribute to the subsequent FBN estimation. To address this issue, we propose a novel FBN estimation method by introducing a latent variable as an indicator of the data quality, and develop an alternating optimization algorithm for jointly scrubbing the data and estimating FBN simultaneously. To further illustrate the effectiveness of the proposed method, we conduct experiments on two public datasets to identify subjects with mild cognitive impairment from normal controls based on the estimated FBNs, and achieve improved accuracies than the baseline methods.

Remodeling Pearson's Correlation for Functional Brain Network Estimation and Autism Spectrum Disorder Identification.

Functional brain network (FBN) has been becoming an increasingly important way to model the statistical dependence among neural time courses of brain, and provides effective imaging biomarkers for diagnosis of some neurological or psychological disorders. Currently, Pearson's Correlation (PC) is the simplest and most widely-used method in constructing FBNs. Despite its advantages in statistical meaning and calculated performance, the PC tends to result in a FBN with dense connections. Therefore, in practice, the PC-based FBN needs to be sparsified by removing weak (potential noisy) connections. However, such a scheme depends on a hard-threshold without enough flexibility. Different from this traditional strategy, in this paper, we propose a new approach for estimating FBNs by remodeling PC as an optimization problem, which provides a way to incorporate biological/physical priors into the FBNs. In particular, we introduce an L1-norm regularizer into the optimization model for obtaining a sparse solution. Compared with the hard-threshold scheme, the proposed framework gives an elegant mathematical formulation for sparsifying PC-based networks. More importantly, it provides a platform to encode other biological/physical priors into the PC-based FBNs. To further illustrate the flexibility of the proposed method, we extend the model to a weighted counterpart for learning both sparse and scale-free networks, and then conduct experiments to identify autism spectrum disorders (ASD) from normal controls (NC) based on the constructed FBNs. Consequently, we achieved an 81.52% classification accuracy which outperforms the baseline and state-of-the-art methods.

Remodeling Pearson's Correlation for Functional Brain Network Estimation and Autism Spectrum Disorder Identification

Remodeling Pearson's Correlation for Functional Brain Network Estimation and Autism Spectrum Disorder Identification