Xiongri Shen

Xiongri Shen, Jiaqi Wang, Zhenxi Song et al.

Mild cognitive impairment (MCI) and subjective cognitive decline (SCD) are closely associated with the early Alzheimer's disease continuum, where accurate and explainable diagnosis is important for early risk assessment and intervention. Existing connectome-based deep learning models can improve classification performance but often provide limited insight into disease-related functional and structural connectivity changes. This paper proposes an atlas-knowledge-guided Generative Counterfactual Attention-guided Network (GCAN) for explainable cognitive decline diagnosis using multimodal brain connectomes. GCAN formulates diagnosis as a source-to-target counterfactual generation problem, where target-label connectomes are generated from source-label inputs and their differences are used to construct counterfactual attention maps. To preserve connectome topology, an Atlas-aware Bidirectional Transformer (AABT) performs network-level token encoding and decoding under brain-atlas constraints. The framework is further extended from functional connectivity (FC) to joint functional and structural connectivity (SC) modeling, enabling counterfactual analysis of complementary functional reorganization and structural topology changes. Experiments on hospital-collected and ADNI datasets show that GCAN achieves competitive performance across HC vs. SCD, HC vs. MCI, and SCD vs. MCI classification tasks. Visualization, circular connectome analysis, CAM-based comparison, ablation studies, and confidence interval analysis further support the interpretability and reliability of the proposed framework. Modality-specific FC and SC pre-trained classifiers are used to provide target-state priors for counterfactual generation while being separated from the downstream diagnostic classifier to prevent data leakage.

Xiongri Shen, Jiaqi Wang, Yi Zhong et al.

Functional and structural connectivity (FC/SC) are key multimodal biomarkers for brain analysis, yet their clinical utility is hindered by costly acquisition, complex preprocessing, and frequent missing modalities. Existing foundation models either process single modalities or lack explicit mechanisms for cross-modal and cross-scale consistency. We propose BrainCSD, a hierarchical mixture-of-experts (MoE) foundation model that jointly synthesizes FC/SC biomarkers and supports downstream decoding tasks (diagnosis and prediction). BrainCSD features three neuroanatomically grounded components: (1) a ROI-specific MoE that aligns regional activations from canonical networks (e.g., DMN, FPN) with a global atlas via contrastive consistency; (2) a Encoding-Activation MOE that models dynamic cross-time/gradient dependencies in fMRI/dMRI; and (3) a network-aware refinement MoE that enforces structural priors and symmetry at individual and population levels. Evaluated on the datasets under complete and missing-modality settings, BrainCSD achieves SOTA results: 95.6\% accuracy for MCI vs. CN classification without FC, low synthesis error (FC RMSE: 0.038; SC RMSE: 0.006), brain age prediction (MAE: 4.04 years), and MMSE score estimation (MAE: 1.72 points). Code is available in \href{https://github.com/SXR3015/BrainCSD}{BrainCSD}

Xiongri Shen, Jiaqi Wang, Yi Zhong et al.

Magnetic resonance imaging (MRI), especially functional MRI (fMRI) and diffusion MRI (dMRI), is essential for studying neurodegenerative diseases. However, missing modalities pose a major barrier to their clinical use. Although GAN- and diffusion model-based approaches have shown some promise in modality completion, they remain limited in fMRI-dMRI synthesis due to (1) significant BOLD vs. diffusion-weighted signal differences between fMRI and dMRI in time/gradient axis, and (2) inadequate integration of disease-related neuroanatomical patterns during generation. To address these challenges, we propose PDS, introducing two key innovations: (1) a pattern-aware dual-modal 3D diffusion framework for cross-modality learning, and (2) a tissue refinement network integrated with a efficient microstructure refinement to maintain structural fidelity and fine details. Evaluated on OASIS-3, ADNI, and in-house datasets, our method achieves state-of-the-art results, with PSNR/SSIM scores of 29.83 dB/90.84\% for fMRI synthesis (+1.54 dB/+4.12\% over baselines) and 30.00 dB/77.55\% for dMRI synthesis (+1.02 dB/+2.2\%). In clinical validation, the synthesized data show strong diagnostic performance, achieving 67.92\%/66.02\%/64.15\% accuracy (NC vs. MCI vs. AD) in hybrid real-synthetic experiments. Code is available in \href{https://github.com/SXR3015/PDS}{PDS GitHub Repository}

Xiongri Shen, Zhenxi Song, Zhiguo Zhang

Diagnosis of mild cognitive impairment (MCI) and subjective cognitive decline (SCD) from fMRI functional connectivity (FC) has gained popularity, but most FC-based diagnostic models are black boxes lacking casual reasoning so they contribute little to the knowledge about FC-based neural biomarkers of cognitive decline.To enhance the explainability of diagnostic models, we propose a generative counterfactual attention-guided network (GCAN), which introduces counterfactual reasoning to recognize cognitive decline-related brain regions and then uses these regions as attention maps to boost the prediction performance of diagnostic models. Furthermore, to tackle the difficulty in the generation of highly-structured and brain-atlas-constrained FC, which is essential in counterfactual reasoning, an Atlas-Aware Bidirectional Transformer (AABT) method is developed. AABT employs a bidirectional strategy to encode and decode the tokens from each network of brain atlas, thereby enhancing the generation of high-quality target label FC. In the experiments of hospital-collected and ADNI datasets, the generated attention maps closely resemble FC abnormalities in the literature on SCD and MCI. The diagnostic performance is also superior to baseline models. The code is available at https://github.com/SXR3015/GCAN

Jiaqi Wang, Liutao Yu, Xiongri Shen et al.

Spiking neural networks (SNNs) offer a promising path toward energy-efficient speech command recognition (SCR) by leveraging their event-driven processing paradigm. However, existing SNN-based SCR methods often struggle to capture rich temporal dependencies and contextual information from speech due to limited temporal modeling and binary spike-based representations. To address these challenges, we first introduce the multi-view spiking temporal-aware self-attention (MSTASA) module, which combines effective spiking temporal-aware attention with a multi-view learning framework to model complementary temporal dependencies in speech commands. Building on MSTASA, we further propose SpikCommander, a fully spike-driven transformer architecture that integrates MSTASA with a spiking contextual refinement channel MLP (SCR-MLP) to jointly enhance temporal context modeling and channel-wise feature integration. We evaluate our method on three benchmark datasets: the Spiking Heidelberg Dataset (SHD), the Spiking Speech Commands (SSC), and the Google Speech Commands V2 (GSC). Extensive experiments demonstrate that SpikCommander consistently outperforms state-of-the-art (SOTA) SNN approaches with fewer parameters under comparable time steps, highlighting its effectiveness and efficiency for robust speech command recognition.

Xiongri Shen, Zhenxi Song, Linling Li et al.

Early diagnosis of mild cognitive impairment (MCI) and subjective cognitive decline (SCD) utilizing multi-modal magnetic resonance imaging (MRI) is a pivotal area of research. While various regional and connectivity features from functional MRI (fMRI) and diffusion tensor imaging (DTI) have been employed to develop diagnosis models, most studies integrate these features without adequately addressing their alignment and interactions. This limits the potential to fully exploit the synergistic contributions of combined features and modalities. To solve this gap, our study introduces a novel Hierarchical Alignments and Hierarchical Interactions (HA-HI) method for MCI and SCD classification, leveraging the combined strengths of fMRI and DTI. HA-HI efficiently learns significant MCI- or SCD- related regional and connectivity features by aligning various feature types and hierarchically maximizing their interactions. Furthermore, to enhance the interpretability of our approach, we have developed the Synergistic Activation Map (SAM) technique, revealing the critical brain regions and connections that are indicative of MCI/SCD. Comprehensive evaluations on the ADNI dataset and our self-collected data demonstrate that HA-HI outperforms other existing methods in diagnosing MCI and SCD, making it a potentially vital and interpretable tool for early detection. The implementation of this method is publicly accessible at https://github.com/ICI-BCI/Dual-MRI-HA-HI.git.

Jiaqi Wang, Zhengyu Ma, Xiongri Shen et al.

Auditory attention detection (AAD) aims to decode listeners' focus in complex auditory environments from electroencephalography (EEG) recordings, which is crucial for developing neuro-steered hearing devices. Despite recent advancements, EEG-based AAD remains hindered by the absence of synergistic frameworks that can fully leverage complementary EEG features under energy-efficiency constraints. We propose S$^2$M-Former, a novel spiking symmetric mixing framework to address this limitation through two key innovations: i) Presenting a spike-driven symmetric architecture composed of parallel spatial and frequency branches with mirrored modular design, leveraging biologically plausible token-channel mixers to enhance complementary learning across branches; ii) Introducing lightweight 1D token sequences to replace conventional 3D operations, reducing parameters by 14.7$\times$. The brain-inspired spiking architecture further reduces power consumption, achieving a 5.8$\times$ energy reduction compared to recent ANN methods, while also surpassing existing SNN baselines in terms of parameter efficiency and performance. Comprehensive experiments on three AAD benchmarks (KUL, DTU and AV-GC-AAD) across three settings (within-trial, cross-trial and cross-subject) demonstrate that S$^2$M-Former achieves comparable state-of-the-art (SOTA) decoding accuracy, making it a promising low-power, high-performance solution for AAD tasks. Code is available at https://github.com/JackieWang9811/S2M-Former.