BrainMAE: A Region-aware Self-supervised Learning Framework for Brain Signals

• URL: http://arxiv.org/abs/2406.17086v1
• Date: Mon, 24 Jun 2024 19:16:24 GMT
• Title: BrainMAE: A Region-aware Self-supervised Learning Framework for Brain Signals
• Authors: Yifan Yang, Yutong Mao, Xufu Liu, Xiao Liu,
• Abstract summary: We propose Brain Masked Auto-Encoder (BrainMAE) for learning representations directly from fMRI time-series data. BrainMAE consistently outperforms established baseline methods by significant margins in four distinct downstream tasks.
• Score: 11.030708270737964
• License: http://creativecommons.org/licenses/by/4.0/
• Abstract: The human brain is a complex, dynamic network, which is commonly studied using functional magnetic resonance imaging (fMRI) and modeled as network of Regions of interest (ROIs) for understanding various brain functions. Recent studies utilize deep learning approaches to learn the brain network representation based on functional connectivity (FC) profile, broadly falling into two main categories. The Fixed-FC approaches, utilizing the FC profile which represents the linear temporal relation within the brain network, are limited by failing to capture informative brain temporal dynamics. On the other hand, the Dynamic-FC approaches, modeling the evolving FC profile over time, often exhibit less satisfactory performance due to challenges in handling the inherent noisy nature of fMRI data. To address these challenges, we propose Brain Masked Auto-Encoder (BrainMAE) for learning representations directly from fMRI time-series data. Our approach incorporates two essential components: a region-aware graph attention mechanism designed to capture the relationships between different brain ROIs, and a novel self-supervised masked autoencoding framework for effective model pre-training. These components enable the model to capture rich temporal dynamics of brain activity while maintaining resilience to inherent noise in fMRI data. Our experiments demonstrate that BrainMAE consistently outperforms established baseline methods by significant margins in four distinct downstream tasks. Finally, leveraging the model's inherent interpretability, our analysis of model-generated representations reveals findings that resonate with ongoing research in the field of neuroscience.

Related papers

• Brain-like Functional Organization within Large Language Models [58.93629121400745]
  The human brain has long inspired the pursuit of artificial intelligence (AI) Recent neuroimaging studies provide compelling evidence of alignment between the computational representation of artificial neural networks (ANNs) and the neural responses of the human brain to stimuli. In this study, we bridge this gap by directly coupling sub-groups of artificial neurons with functional brain networks (FBNs) This framework links the AN sub-groups to FBNs, enabling the delineation of brain-like functional organization within large language models (LLMs)
  arXiv  Detail & Related papers  (2024-10-25T13:15:17Z)
• MindFormer: Semantic Alignment of Multi-Subject fMRI for Brain Decoding [50.55024115943266]
  We introduce a novel semantic alignment method of multi-subject fMRI signals using so-called MindFormer. This model is specifically designed to generate fMRI-conditioned feature vectors that can be used for conditioning Stable Diffusion model for fMRI- to-image generation or large language model (LLM) for fMRI-to-text generation. Our experimental results demonstrate that MindFormer generates semantically consistent images and text across different subjects.
  arXiv  Detail & Related papers  (2024-05-28T00:36:25Z)
• Interpretable Spatio-Temporal Embedding for Brain Structural-Effective Network with Ordinary Differential Equation [56.34634121544929]
  In this study, we first construct the brain-effective network via the dynamic causal model. We then introduce an interpretable graph learning framework termed Spatio-Temporal Embedding ODE (STE-ODE) This framework incorporates specifically designed directed node embedding layers, aiming at capturing the dynamic interplay between structural and effective networks.
  arXiv  Detail & Related papers  (2024-05-21T20:37:07Z)
• DSAM: A Deep Learning Framework for Analyzing Temporal and Spatial Dynamics in Brain Networks [4.041732967881764]
  Most rs-fMRI studies compute a single static functional connectivity matrix across brain regions of interest. These approaches are at risk of oversimplifying brain dynamics and lack proper consideration of the goal at hand. We propose a novel interpretable deep learning framework that learns goal-specific functional connectivity matrix directly from time series.
  arXiv  Detail & Related papers  (2024-05-19T23:35:06Z)
• MindBridge: A Cross-Subject Brain Decoding Framework [60.58552697067837]
  Brain decoding aims to reconstruct stimuli from acquired brain signals. Currently, brain decoding is confined to a per-subject-per-model paradigm. We present MindBridge, that achieves cross-subject brain decoding by employing only one model.
  arXiv  Detail & Related papers  (2024-04-11T15:46:42Z)
• Spatial-Temporal DAG Convolutional Networks for End-to-End Joint Effective Connectivity Learning and Resting-State fMRI Classification [42.82118108887965]
  Building comprehensive brain connectomes has proved to be fundamental importance in resting-state fMRI (rs-fMRI) analysis. We model the brain network as a directed acyclic graph (DAG) to discover direct causal connections between brain regions. We propose Spatial-Temporal DAG Convolutional Network (ST-DAGCN) to jointly infer effective connectivity and classify rs-fMRI time series.
  arXiv  Detail & Related papers  (2023-12-16T04:31:51Z)
• fMRI-PTE: A Large-scale fMRI Pretrained Transformer Encoder for Multi-Subject Brain Activity Decoding [54.17776744076334]
  We propose fMRI-PTE, an innovative auto-encoder approach for fMRI pre-training. Our approach involves transforming fMRI signals into unified 2D representations, ensuring consistency in dimensions and preserving brain activity patterns. Our contributions encompass introducing fMRI-PTE, innovative data transformation, efficient training, a novel learning strategy, and the universal applicability of our approach.
  arXiv  Detail & Related papers  (2023-11-01T07:24:22Z)
• A Deep Probabilistic Spatiotemporal Framework for Dynamic Graph Representation Learning with Application to Brain Disorder Identification [5.563162319586206]
  Recent applications of pattern recognition techniques on brain connectomeome classification using functional connectivity (FC) are shifting towards acknowledging dynamics of brain connectivity across time. In this paper, a deep non-temporalal variation Bayes framework is proposed to learn to identify autism spectrum disorder (ASD) in human participants. The framework incorporates a spatial-aware recurrent neural network with an attention-based message passing scheme to capture richtemporal patterns across dynamic FC networks.
  arXiv  Detail & Related papers  (2023-02-14T18:42:17Z)
• Deep Representations for Time-varying Brain Datasets [4.129225533930966]
  This paper builds an efficient graph neural network model that incorporates both region-mapped fMRI sequences and structural connectivities as inputs. We find good representations of the latent brain dynamics through learning sample-level adaptive adjacency matrices. These modules can be easily adapted to and are potentially useful for other applications outside the neuroscience domain.
  arXiv  Detail & Related papers  (2022-05-23T21:57:31Z)
• Functional2Structural: Cross-Modality Brain Networks Representation Learning [55.24969686433101]
  Graph mining on brain networks may facilitate the discovery of novel biomarkers for clinical phenotypes and neurodegenerative diseases. We propose a novel graph learning framework, known as Deep Signed Brain Networks (DSBN), with a signed graph encoder. We validate our framework on clinical phenotype and neurodegenerative disease prediction tasks using two independent, publicly available datasets.
  arXiv  Detail & Related papers  (2022-05-06T03:45:36Z)

This list is automatically generated from the titles and abstracts of the papers in this site.

This site does not guarantee the quality of this site (including all information) and is not responsible for any consequences.