Training recurrent neural networks (RNNs) has become a go-to approach for generating and evaluating mechanistic neural hypotheses for cognition. The ease and efficiency of training RNNs with backpropagation through time and the availability of robustly supported deep learning libraries has made RNN modeling more approachable and accessible to neuroscience.

Multi-voxel pattern analysis (MVPA) learns predictive models from task-based functional magnetic resonance imaging (fMRI) data, for distinguishing when subjects are performing different cognitive tasks -- e.g., watching movies or making decisions. MVPA works best with a well-designed feature set and an adequate sample size. However, most fMRI datasets are noisy, high-dimensional, expensive to collect, and with small sample sizes. Further, training a robust, generalized predictive model that can analyze homogeneous cognitive tasks provided by multi-site fMRI datasets has additional challenges. This paper proposes the Shared Space Transfer Learning (SSTL) as a novel transfer learning (TL) approach that can functionally align homogeneous multi-site fMRI datasets, and so improve the prediction performance in every site.

To address this, we introduce a hybrid architecture that integrates the continuous-time recurrent dynamics of RNNs with the spatial processing capabilities of CNNs.

Can multi-modal large language models (MLLMs) truly understand what they can see? Extending Searle's Chinese Room into the multi-modal domain, this paper proposes the Visual Room argument: MLLMs may describe every visual detail precisely yet fail to comprehend the underlying emotions and intentions, namely seeing is not understanding. Building on this, we introduce \textit{Visual Room} 2.0, a hierarchical benchmark for evaluating perception-cognition alignment of MLLMs. We model human perceptive and cognitive processes across three levels: low, middle, and high, covering 17 representative tasks. The perception component ranges from attribute recognition to scene understanding, while the cognition component extends from textual entailment to causal and social reasoning. The dataset contains 350 multi-modal samples, each with six progressive questions (2,100 in total) spanning perception to cognition. Evaluating 10 state-of-the-art (SoTA) MLLMs, we highlight three key findings: (1) MLLMs exhibit stronger perceptual competence than cognitive ability (8.0\%$\uparrow$); (2) cognition appears not causally dependent on perception-based reasoning; and (3) cognition scales with model size, but perception does not consistently improve with larger variants. This work operationalizes Seeing $\ne$ Understanding as a testable hypothesis, offering a new paradigm from perceptual processing to cognitive reasoning in MLLMs. Our dataset is available at https://huggingface.co/datasets/LHK2003/PCBench.

This paper proposes the Shared Space Transfer Learning (SSTL) as a novel transfer learning (TL) approach that can functionally align homogeneous multi-site fMRI datasets, and so improve the prediction performance in every site.

The ability to continually learn, retain and deploy skills to accomplish goals is a key feature of intelligent and efficient behavior. However, the neural mechanisms facilitating the continual learning and flexible (re-)composition of skills remain elusive. Here, we study continual learning and the compositional reuse of learned computations in recurrent neural network (RNN) models using a novel two-system approach: one system that infers what computation to perform, and one that implements how to perform it. We focus on a set of compositional cognitive tasks commonly studied in neuroscience. To construct the what system, we first show that a large family of tasks can be systematically described by a probabilistic generative model, where compositionality stems from a shared underlying vocabulary of discrete task epochs. The shared epoch structure makes these tasks inherently compositional. We first show that this compositionality can be systematically described by a probabilistic generative model. Furthermore, We develop an unsupervised online learning approach that can learn this model on a single-trial basis, building its vocabulary incrementally as it is exposed to new tasks, and inferring the latent epoch structure as a time-varying computational context within a trial. We implement the how system as an RNN whose low-rank components are composed according to the context inferred by the what system. Contextual inference facilitates the creation, learning, and reuse of low-rank RNN components as new tasks are introduced sequentially, enabling continual learning without catastrophic forgetting. Using an example task set, we demonstrate the efficacy and competitive performance of this two-system learning framework, its potential for forward and backward transfer, as well as fast compositional generalization to unseen tasks.

To address this, we introduce a hybrid architecture that integrates the continuous-time recurrent dynamics of RNNs with the spatial processing capabilities of CNNs.

Training recurrent neural networks (RNNs) has become a go-to approach for generating and evaluating mechanistic neural hypotheses for cognition.

Brain atlases are essential for reducing the dimensionality of neuroimaging data and enabling interpretable analysis. However, most existing atlases are predefined, group-level templates with limited flexibility and resolution. We present Deep Cluster Atlas (DCA), a graph-guided deep embedding clustering framework for generating individualized, voxel-wise brain parcellations. DCA combines a pretrained autoencoder with spatially regularized deep clustering to produce functionally coherent and spatially contiguous regions. Our method supports flexible control over resolution and anatomical scope, and generalizes to arbitrary brain structures. We further introduce a standardized benchmarking platform for atlas evaluation, using multiple large-scale fMRI datasets. Across multiple datasets and scales, DCA outperforms state-of-the-art atlases, improving functional homogeneity by 98.8% and silhouette coefficient by 29%, and achieves superior performance in downstream tasks such as autism diagnosis and cognitive decoding. We also observe that a fine-tuned pretrained model achieves superior results on the corresponding task. Codes and models are available at https://github.com/ncclab-sustech/DCA .