Functional network estimation using multigraph learning with application to brain maturation study

Interpretable Cognitive Ability Prediction: A Comprehensive Gated Graph Transformer Framework for Analyzing Functional Brain Networks

Graph convolutional deep learning has emerged as a promising method to explore the functional organization of the human brain in neuroscience research. This paper presents a novel framework that utilizes the gated graph transformer (GGT) model to predict individuals' cognitive ability based on functional connectivity (FC) derived from fMRI. Our framework incorporates prior spatial knowledge and uses a random-walk diffusion strategy that captures the intricate structural and functional relationships between different brain regions. Specifically, our approach employs learnable structural and positional encodings (LSPE) in conjunction with a gating mechanism to efficiently disentangle the learning of positional encoding (PE) and graph embeddings. Additionally, we utilize the attention mechanism to derive multi-view node feature embeddings and dynamically distribute propagation weights between each node and its neighbors, which facilitates the identification of significant biomarkers from functional brain networks and thus enhances the interpretability of the findings. To evaluate our proposed model in cognitive ability prediction, we conduct experiments on two large-scale brain imaging datasets: the Philadelphia Neurodevelopmental Cohort (PNC) and the Human Connectome Project (HCP). The results show that our approach not only outperforms existing methods in prediction accuracy but also provides superior explainability, which can be used to identify important FCs underlying cognitive behaviors.

Dynamic weighted hypergraph convolutional network for brain functional connectome analysis

The hypergraph structure has been utilized to characterize the brain functional connectome (FC) by capturing the high order relationships among multiple brain regions of interest (ROIs) compared with a simple graph. Accordingly, hypergraph neural network (HGNN) models have emerged and provided efficient tools for hypergraph embedding learning. However, most existing HGNN models can only be applied to pre-constructed hypergraphs with a static structure during model training, which might not be a sufficient representation of the complex brain networks. In this study, we propose a dynamic weighted hypergraph convolutional network (dwHGCN) framework to consider a dynamic hypergraph with learnable hyperedge weights. Specifically, we generate hyperedges based on sparse representation and calculate the hyper similarity as node features. The hypergraph and node features are fed into a neural network model, where the hyperedge weights are updated adaptively during training. The dwHGCN facilitates the learning of brain FC features by assigning larger weights to hyperedges with higher discriminative power. The weighting strategy also improves the interpretability of the model by identifying the highly active interactions among ROIs shared by a common hyperedge. We validate the performance of the proposed model on two classification tasks with three paradigms functional magnetic resonance imaging (fMRI) data from Philadelphia Neurodevelopmental Cohort. Experimental results demonstrate the superiority of our proposed method over existing hypergraph neural networks. We believe our model can be applied to other applications in neuroimaging for its strength in representation learning and interpretation.

Brain Functional Connectivity Analysis via Graphical Deep Learning

OBJECTIVE

Graphical deep learning models provide a desirable way for brain functional connectivity analysis. However, the application of current graph deep learning models to brain network analysis is challenging due to the limited sample size and complex relationships between different brain regions.

METHOD

In this work, a graph convolutional network (GCN) based framework is proposed by exploiting the information from both region-to-region connectivities of the brain and subject-subject relationships. We first construct an affinity subject-subject graph followed by GCN analysis. A Laplacian regularization term is introduced in our model to tackle the overfitting problem. We apply and validate the proposed model to the Philadelphia Neurodevelopmental Cohort for the brain cognition study.

RESULTS

Experimental analysis shows that our proposed framework outperforms other competing models in classifying groups with low and high Wide Range Achievement Test (WRAT) scores. Moreover, to examine each brain region's contribution to cognitive function, we use the occlusion sensitivity analysis method to identify cognition-related brain functional networks. The results are consistent with previous research yet yield new findings.

CONCLUSION AND SIGNIFICANCE

Our study demonstrates that GCN incorporating prior knowledge about brain networks offers a powerful way to detect important brain networks and regions associated with cognitive functions.

Functional network estimation using multigraph learning with application to brain maturation study

Although most dramatic structural changes occur in the perinatal period, a growing body of evidences demonstrates that adolescence and early adulthood are also important for substantial neurodevelopment. We were thus motivated to explore brain development during puberty by evaluating functional connectivity network (FCN) differences between childhood and young adulthood using multi-paradigm task-based functional magnetic resonance imaging (fMRI) measurements. Different from conventional multigraph based FCN construction methods where the graph network was built independently for each modality/paradigm, we proposed a multigraph learning model in this work. It promises a better fitting to FCN construction by jointly estimating brain network from multi-paradigm fMRI time series, which may share common graph structures. To investigate the hub regions of the brain, we further conducted graph Fourier transform (GFT) to divide the fMRI BOLD time series of a node within the brain network into a range of frequencies. Then we identified the hub regions characterizing brain maturity through eigen-analysis of the low frequency components, which were believed to represent the organized structures shared by a large population. The proposed method was evaluated using both synthetic and real data, which demonstrated its effectiveness in extracting informative brain connectivity patterns. We detected 14 hub regions from the child group and 12 hub regions from the young adult group. We show the significance of these findings with a discussion of their functions and activation patterns as a function of age. In summary, our proposed method can extract brain connectivity network more accurately by considering the latent common structures between different fMRI paradigms, which are significant for both understanding brain development and recognizing population groups of different ages.