Characterizing interactions between brain areas is a fundamental goal of systems neuroscience. While such analyses are possible when areas are recorded simultaneously, it is rare to observe all combinations of areas of interest within a single animal or recording session. How can we leverage multi-animal datasets to better understand multi-area interactions? Building on recent progress in large-scale, multi-animal models, we introduce NeuroPaint, a masked autoencoding approach for inferring the dynamics of unrecorded brain areas. By training across animals with overlapping subsets of recorded areas, NeuroPaint learns to reconstruct activity in missing areas based on shared structure across individuals. We train and evaluate our approach on synthetic data and two multi-animal, multi-area Neuropixels datasets. Our results demonstrate that models trained across animals with partial observations can successfully in-paint the dynamics of unrecorded areas, enabling 39th Conference on Neural Information Processing Systems (NeurIPS 2025).

Verifiers can improve language model (LM) capabilities by providing feedback or selecting the best response from a pool of generated candidates. Currently, high-quality verifiers are either unscalable (e.g., humans) or limited in utility (e.g., tools like Lean for formal proofs). While LM judges and reward models have become broadly useful as general-purpose verifiers, a significant performance gap remains between them and oracle verifiers. To help close this gap, we introduce WEAVER, a framework for designing a strong verifier by combining multiple weak, imperfect verifiers. First we find that weighted ensembles of verifiers, which typically require learning from labeled data, significantly outperform unweighted combinations due to differences in the verifiers. To reduce the dependency on labeled data, WEAVER leverages weak supervision to estimate each verifier's accuracy and combines their outputs into a unified score that better reflects true response quality.

Finite-sum Coupled Compositional Optimization (FCCO), characterized by its coupled compositional objective structure, emerges as an important optimization paradigm for addressing a wide range of machine learning problems. In this paper, we focus on a challenging class of non-convex non-smooth FCCO, where the outer functions are non-smooth weakly convex or convex and the inner functions are smooth or weakly convex. Existing state-of-the-art result face two key limitations: (1) a high iteration complexity of O(1/ϵ6)under the assumption that the stochastic inner functions are Lipschitz continuous in expectation; (2) reliance on vanilla SGD-type updates, which are not suitable for deep learning applications. Our main contributions are two fold: (i) We propose stochastic momentum methods tailored for non-smooth FCCO that come with provable convergence guarantees; (ii) We establish a new state-of-the-art iteration complexity of O(1/ϵ5). Moreover, we apply our algorithms to multiple inequality constrained non-convex optimization problems involving smooth or weakly convex functional inequality constraints. By optimizing a smoothed hinge penalty based formulation, we achieve a new state-of-the-art complexity of O(1/ϵ5)for finding an (nearly) ϵ-level KKT solution. Experiments on three tasks demonstrate the effectiveness of the proposed algorithms.

Recent advances in false discovery rate (FDR)-controlled feature selection methods have improved reliability by effectively limiting false positives, making them wellsuited for complex applications. A popular FDR-controlled framework called data splitting uses the "mirror statistics" to select features. However, we find that the unit variance assumption on mirror statistics could potentially limit the feature selection power. To address this, we generalize the mirror statistics in the Gaussian mirror framework and introduce a new approach called "generalized Gaussian mirror" (G2M), which adaptively learns the variance and forms new test statistics. We demonstrate both theoretically and empirically that the proposed test statistics achieve higher power than those of Gaussian mirror and data splitting. Comparisons with other FDR-controlled frameworks on synthetic, semi-synthetic, and real datasets highlight the superior performance of the G2M method in achieving higher power while maintaining FDR control. These findings suggest the potential for the G2M method for practical applications in real-world problems. Code is available at: https://github.com/skyve2012/G2M.

This paper proposes a new algorithm for learning gradient boosted decision trees while ensuring the existence of recourse actions. Algorithmic recourse aims to provide a recourse action for altering the undesired prediction result given by a model. While existing studies often focus on extracting valid and executable actions from a given learned model, such reasonable actions do not always exist for models optimized solely for predictive accuracy. To address this issue, recent studies proposed a framework for learning a model while guaranteeing the existence of reasonable actions with high probability. However, these methods can not be applied to gradient boosted decision trees, which are renowned as one of the most popular models for tabular datasets. We propose an efficient gradient boosting algorithm that takes recourse guarantee into account, while maintaining the same time complexity as the standard ones. We also propose a post-processing method for refining a learned model under the constraint of a recourse guarantee and provide a PAC-style analysis of the refined model. Experimental results demonstrated that our method successfully provided reasonable actions to more instances than the baselines without significantly degrading accuracy and computational efficiency.

The scale and quality of datasets are crucial for training robust perception models. However, obtaining large-scale annotated data is both costly and time-consuming. Generative models have emerged as a powerful tool for data augmentation by synthesizing samples that adhere to desired distributions. However, current generative approaches often rely on complex post-processing or extensive fine-tuning on massive datasets to achieve satisfactory results, and they remain prone to content-position mismatches and semantic leakage. To overcome these limitations, we introduce ReCon, a novel augmentation framework that enhances the capacity of structure-controllable generative models for object detection.

Semantic retrieval is crucial for modern applications yet remains underexplored in current research. Existing datasets are limited to single languages, single images, or singular retrieval conditions, often failing to fully exploit the expressive capacity of visual information, as evidenced by maintained performance when images are replaced with captions. However, practical retrieval scenarios frequently involve interleaved multi-condition queries with multiple images.

LLM serving systems typically treat user prompts as monolithic inputs, optimizing inference through decoding tricks or inter-query batching. However, many real-world prompts contain latent semantic parallelism--decomposable structures where subtasks can be executed independently to reduce latency while preserving meaning. We introduce PARALLELPROMPT, the first benchmark for measuring intra-query parallelism in natural user prompts. Our dataset comprises over 37,000 real-world prompts from public LLM chat logs, each annotated with a structured schema capturing task templates, shared context, and iteration inputs. These schemas are extracted using LLM-assisted prompting with rule-based multilingual validation. To evaluate the benefits of decomposition, we provide an execution suite that benchmarks serial vs. parallel strategies, measuring latency, structural adherence, and semantic fidelity. Our results show that intra-query parallelism can be successfully parsed in over 75% of curated datasets, unlocking up to 5 speedups on tasks like translation, comprehension, and comparative analysis, with minimal quality degradation. By releasing this benchmark, curation pipeline, and evaluation suite, we provide the first standardized testbed for studying structure-aware execution in LLM serving pipelines.

Despite Multimodal Large Language Models (MLLMs) showing promising results on general zero-shot image classification tasks, fine-grained image classification remains challenging. It demands precise attention to subtle visual details to distinguish between visually similar subcategories--details that MLLMs may easily overlook without explicit guidance. To address this, we introduce AutoSEP, an iterative self-supervised prompt learning framework designed to enhance MLLM fine-grained classification capabilities in a fully unsupervised manner. Our core idea is to leverage unlabeled data to learn a description prompt that guides MLLMs in identifying crucial discriminative features within an image, and boosts classification accuracy. We developed an automatic self-enhancing prompt learning framework called AutoSEP to iteratively improve the description prompt using unlabeled data, based on instance-level classification scoring function. AutoSEP only requires black-box access to MLLMs, eliminating the need for any training or fine-tuning. We evaluate our approach on multiple fine-grained classification datasets. It consistently outperforms other unsupervised baselines, demonstrating the effectiveness of our self-supervised optimization framework. Notably, AutoSEP in average improves 13% over standard zero-shot classification and 3% over the best-performing baselines.

Positive and Unlabeled (PU) learning is a special case of binary classification with weak supervision, where only positive labeled and unlabeled data are available. Previous studies suggest several specific risk estimators of PU learning such as non-negative PU (nnPU), which are unbiased and consistent with the expected risk of supervised binary classification. In nnPU, the negative-class empirical risk is estimated by positive labeled and unlabeled data with a non-negativity constraint. However, its negative-class empirical risk estimator approaches 0, so the negative class is over-played, resulting in imbalanced error rates between positive and negative classes. To solve this problem, we suppose that the expected risks of the positive-class and negative-class should be close. Accordingly, we constrain that the negative-class empirical risk estimator is lower bounded by the positive-class empirical risk, instead of 0; and also incorporate an explicit equality constraint between them. We suggest a risk estimator of PU learning that balances positive and negative classification error rates, named DC-PU, and suggest an efficient training method for DC-PU based on the augmented Lagrange multiplier framework. We theoretically analyze the estimation error of DC-PU and empirically validate that DC-PU achieves higher accuracy and converges more stable than other risk estimators of PU learning. Additionally, DC-PU also performs competitive accuracy performance with practical PU learning methods.