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 Deep Learning


Foundation Model for Neural Interfaces

Neural Information Processing Systems

Electroencephalography (EEG) has wide-ranging applications, from clinical diagnosis to brain-computer interfaces (BCIs). With the increasing volume and variety of EEG data, there has been growing interest in establishing foundation models (FMs) to scale up and generalize neural decoding. Despite showing early potential, applying FMs to EEG remains challenging due to substantial inter-subject, intertask, and inter-condition variability, as well as diverse electrode configurations across recording setups. To tackle these open challenges, we propose NEURIPT, a foundation model developed for diverse EEG-based Neural Interfaces with a Pre-trained Transformer by capturing both homogeneous and heterogeneous spatio-temporal characteristics inherent in EEG signals. Temporally, we introduce Amplitude-Aware Masked Pretraining (AAMP), masking based on signal amplitude rather than random intervals, to learn robust representations across varying signal intensities beyond local interpolation. Moreover, this temporal representation is enhanced by a Progressive Mixture-of-Experts (PMoE) architecture, where specialized expert subnetworks are progressively introduced at deeper layers, adapting effectively to the diverse temporal characteristics of EEG signals.


Masked Gated Linear Unit

Neural Information Processing Systems

Gated Linear Units (GLUs) have become essential components in the feed-forward networks of state-of-the-art Large Language Models (LLMs). However, they require twice as many memory reads compared to feed-forward layers without gating, due to the use of separate weight matrices for the gate and value streams. To address this bottleneck, we introduce Masked Gated Linear Units (MGLUs), a novel family of GLUs with an efficient kernel implementation. The core contribution of MGLUs include: (1) the Mixture of Element-wise Gating (MoEG) architecture that learns multiple binary masks, each determining gate or value assignments at the element level on a single shared weight matrix resulting in reduced memory transfer, and (2) FlashMGLU, a hardware-friendly kernel that yields up to a 19.7 inference-time speed-up over a naรฏve PyTorch MGLU and is 47% more memory-efficient and 34% faster than standard GLUs despite added architectural complexity on an RTX5090 GPU. In LLM experiments, the Swish-activated variant SwiMGLU preserves its memory advantages while matching--or even surpassing--the downstream accuracy of the SwiGLU baseline.


Red-Teaming Text-to-Image Systems by Rule-based Preference Modeling

Neural Information Processing Systems

Text-to-image (T2I) models raise ethical and safety concerns due to their potential to generate inappropriate or harmful images. Evaluating these models' security through red-teaming is vital, yet white-box approaches are limited by their need for internal access, complicating their use with closed-source models. Moreover, existing black-box methods often assume knowledge about the model's specific defense mechanisms, limiting their utility in real-world commercial API scenarios. A significant challenge is how to evade unknown and diverse defense mechanisms. To overcome this difficulty, we propose a novel Rule-based Preference modeling Guided Red-Teaming (RPG-RT), which iteratively employs LLM to modify prompts to query and leverages feedback from T2I systems for fine-tuning the LLM. RPG-RT treats the feedback from each iteration as a prior, enabling the LLM to dynamically adapt to unknown defense mechanisms. Given that the feedback is often labeled and coarse-grained, making it difficult to utilize directly, we further propose rule-based preference modeling, which employs a set of rules to evaluate desired or undesired feedback, facilitating finer-grained control over the LLM's dynamic adaptation process. Extensive experiments on nineteen T2I systems with varied safety mechanisms, three online commercial API services, and T2V models verify the superiority and practicality of our approach. Our codes are available at: https://github.com/caosip/RPG-RT.


Memory-Integrated Reconfigurable Adapters: A Unified Framework for Settings with Multiple Tasks

Neural Information Processing Systems

Organisms constantly pivot between tasks such as evading predators, foraging, traversing rugged terrain, and socializing, often within milliseconds. Remarkably, they preserve knowledge of once-learned environments sans catastrophic forgetting, a phenomenon neuroscientists hypothesize, is due to a singular neural circuitry dynamically overlayed by neuromodulatory agents such as dopamine and acetylcholine. In parallel, deep learning research addresses analogous challenges via domain generalization (DG) and continual learning (CL), yet these methods remain siloed, despite the brain's ability to perform them seamlessly. In particular, prior work has not explored architectures involving associative memories (AMs), which are an integral part of biological systems, to jointly address these tasks. We propose Memory-Integrated Reconfigurable Adapters (MIRA), a unified framework that integrates Hopfield-style associative memory modules atop a shared backbone. These memory modules store adapter-weight updates as values and retrieve them via learned keys. Associative memory keys are learned post-hoc to index and retrieve an affine combination of stored adapter updates for any given task or domain on a per-sample basis. By varying only the task-specific objectives, we demonstrate that MIRA seamlessly accommodates domain shifts and sequential task exposures under one roof. Empirical evaluations on standard benchmarks confirm that our AM-augmented architecture significantly enhances adaptability and retention: in DG, MIRA achieves SoTA out-of-distribution accuracy, and in incremental learning settings, it outperforms architectures explicitly designed to handle catastrophic forgetting using generic CL algorithms.


One Token Embedding Is Enough to Deadlock Your Large Reasoning Model

Neural Information Processing Systems

However, this iterative thinking mechanism introduces a new vulnerability surface. We present the Deadlock Attack, a resource exhaustion method that hijacks an LRM's generative control flow by training a malicious adversarial embedding to induce perpetual reasoning loops. Specifically, the optimized embedding encourages transitional tokens (e.g., "Wait", "But") after reasoning steps, preventing the model from concluding its answer. A key challenge we identify is the continuous-to-discrete projection gap: naรฏve projections of adversarial embeddings to token sequences nullify the attack. To overcome this, we introduce a backdoor implantation strategy, enabling reliable activation through specific trigger tokens. Our method achieves a 100% attack success rate across four advanced LRMs (Phi-RM, Nemotron-Nano, R1-Qwen, R1-Llama) and three math reasoning benchmarks, forcing models to generate up to their maximum token limits. The attack is also stealthy (in terms of causing negligible utility loss on benign user inputs) and remains robust against existing strategies trying to mitigate the overthinking issue. Our findings expose a critical and underexplored security vulnerability in LRMs from the perspective of reasoning (in)efficiency.


Stepsize Anything: AUnified Learning Rate Schedule for Budgeted-Iteration Training

Neural Information Processing Systems

The expanding computational costs and limited resources underscore the critical need for budgeted-iteration training, which aims to achieve optimal learning within predetermined iteration budgets. While learning rate schedules fundamentally govern the performance of different networks and tasks, particularly in budgeted-iteration scenarios, their design remains largely heuristic, lacking theoretical foundations. In addition, the optimal learning rate schedule requires extensive trial-and-error selection, making the training process inefficient. In this work, we propose the Unified Budget-Aware (UBA) schedule, a theoretically grounded learning rate schedule that consistently outperforms commonly-used schedules among diverse architectures and tasks under different constrained training budgets. First, we bridge the gap by constructing a novel training budget-aware optimization framework, which explicitly accounts for the robustness to landscape curvature variations.


RIGNO: AGraph-based Framework For Robust And Accurate Operator Learning For PDEs On Arbitrary Domains

Neural Information Processing Systems

Learning the solution operators of PDEs on arbitrary domains is challenging due to the diversity of possible domain shapes, in addition to the often intricate underlying physics. We propose an end-to-end graph neural network (GNN) based neural operator to learn PDE solution operators from data on point clouds in arbitrary domains.


From Pixels to Views: Learning Angular-Aware and Physics-Consistent Representations for Light Field Microscopy

Neural Information Processing Systems

Light field microscopy (LFM) has become an emerging tool in neuroscience for large-scale neural imaging in vivo, with XLFM (eXtended Light Field Microscopy) notable for its single-exposure volumetric imaging, broad field of view, and high temporal resolution. However, learning-based 3D reconstruction in XLFM remains underdeveloped due to two core challenges: the absence of standardized datasets and the lack of methods that can efficiently model its angular-spatial structure while remaining physically grounded. We address these challenges by introducing three key contributions. First, we construct the XLFM-Zebrafish benchmark, a large-scale dataset and evaluation suite for XLFM reconstruction. Second, we propose Masked View Modeling for Light Fields (MVM-LF), a self-supervised task that learns angular priors by predicting occluded views, improving data efficiency. Third, we formulate the Optical Rendering Consistency Loss (ORC Loss), a differentiable rendering constraint that enforces alignment between predicted volumes and their PSF-based forward projections. On the XLFM-Zebrafish benchmark, our method improves PSNR by 7.7% over state-of-the-art baselines.


Brain-Inspired fMRI-to-Text Decoding via Incremental and Wrap-Up Language Modeling

Neural Information Processing Systems

Decoding natural language text from non-invasive brain signals, such as functional magnetic resonance imaging (fMRI), remains a central challenge in brain-computer interface research. While recent advances in large language models (LLMs) have enabled open-vocabulary fMRI-to-text decoding, existing frameworks typically process the entire fMRI sequence in a single step, leading to performance degradation when handling long input sequences due to memory overload and semantic drift. To address this limitation, we propose a brain-inspired sequential fMRI-totext decoding framework that mimics the human cognitive strategy of segmented and inductive language processing. Specifically, we divide long fMRI time series into consecutive segments aligned with optimal language comprehension length. Each segment is decoded incrementally, followed by a wrap-up mechanism that summarizes the semantic content and incorporates it as prior knowledge into subsequent decoding steps. This sequence-wise approach alleviates memory burden and ensures semantic continuity across segments. In addition, we introduce a textguided masking strategy integrated with a masked autoencoder (MAE) framework for fMRI representation learning. This method leverages attention distributions over key semantic tokens to selectively mask the corresponding fMRI time points, and employs MAE to guide the model toward focusing on neural activity at semantically salient moments, thereby enhancing the capability of fMRI embeddings to represent textual information. Experimental results on the two datasets demonstrate that our method significantly outperforms state-of-the-art approaches, with performance gains increasing as decoding length grows.


Copresheaf Topological Neural Networks: AGeneralized Deep Learning Framework

Neural Information Processing Systems

We introduce copresheaf topological neural networks (CTNNs), a powerful unifying framework that encapsulates a wide spectrum of deep learning architectures, designed to operate on structured data, including images, point clouds, graphs, meshes, and topological manifolds. While deep learning has profoundly impacted domains ranging from digital assistants to autonomous systems, the principled design of neural architectures tailored to specific tasks and data types remains one of the field's most persistent open challenges. CTNNs address this gap by formulating model design in the language of copresheaves, a concept from algebraic topology that generalizes most practical deep learning models in use today. This abstract yet constructive formulation yields a rich design space from which theoretically sound and practically effective solutions can be derived to tackle core challenges in representation learning, such as long-range dependencies, oversmoothing, heterophily, and non-Euclidean domains. Our empirical results on structured data benchmarks demonstrate that CTNNs consistently outperform conventional baselines, particularly in tasks requiring hierarchical or localized sensitivity. These results establish CTNNs as a principled multi-scale foundation for the next generation of deep learning architectures.