Yuhao Wang, Zelin Zang, Yuxuan Liu, Zhen Lei, Stan Z. Li
Single-cell transcriptomes are sparse, unordered measurements of coordinated biological activity, yet many self-supervised models define their learning target at the level of individual genes or reconstructed expression values. Here we introduce GB-JEPA, a joint-embedding predictive architecture in which graph-connected gene blocks form the latent prediction units. A student encoder observes the genes outside each target block, whereas an exponential-moving-average teacher represents the full observed gene set. Teacher states are aggregated within a block before the prediction error is evaluated, converting thousands of sparse gene-level targets into a small collection of intermediate-scale latent targets. The graph therefore serves not only as prior information, but also as a mechanism for controlling the structure, scale and predictability of self-supervision. We evaluate the resulting frozen cell representations through objective diagnostics, cell-state annotation, continuous-expression and pathway probes, perturbation-response prediction, computational measurements and direct biological interrogation. This study presents a graph-structured route for adapting JEPA learning to molecular observations and a general framework for designing prediction units from relationships native to a biological modality.
Hongcheng Liu, Yuhao Wang, Zhe Chen, Pingjie Wang, Zhiyuan Zhu, Yixuan Hou Shanghai Jiaotong University, Yanfeng Wang Shanghai Jiao Tong University, Yu Wang Shanghai Jiao Tong University
Omni Large Language Models (Omni-LLMs) have demonstrated impressive capabilities in holistic multi-modal perception, yet they consistently falter in complex scenarios requiring synergistic omni-modal reasoning. Beyond understanding global multimodal context, effective reasoning also hinges on fine-grained cross-modal alignment, especially identifying shared referents across modalities, yet this aspect has been largely overlooked. To bridge this gap, we formalize the challenge as a cross-modal coreference problem, where a model must localize a referent in a source modality and re-identify it in a target modality. Building on this paradigm, we introduce CrossOmni, a dataset comprising nine tasks equipped with human-designed reasoning rationales to evaluate and enhance this capability. Experiments on 13 Omni-LLMs reveal systematic weaknesses in cross-modal coreference, which we attribute to the absence of coreference-aware thinking patterns. To address this, we enhance cross-modal alignment via two strategies: a training-free In-Context Learning method and a training-based SFT+GRPO framework designed to induce such thinking patterns. Both approaches yield substantial performance gains and generalize effectively to collaborative reasoning tasks. Overall, our findings highlight cross-modal coreference as a crucial missing piece for advancing robust omni-modal reasoning.
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cs.CL · cs.CV
Proceedings of the 64th Annual Meeting of the Association for Computational Linguistics (Volume 1: Long Papers) · 2026 · 正式发表
Hongcheng Liu, Pingjie Wang, Yuhao Wang, Siqu Ou Shanghai Jiaotong University, Yanfeng Wang Shanghai Jiao Tong University, Yu Wang Shanghai Jiao Tong University
Multimodal large language models (MLLMs) have shown strong capabilities across a broad range of benchmarks. However, most existing evaluations focus on passive inference, where models perform step-by-step reasoning under complete information. This setup is misaligned with real-world use, where seeing is not enough. This raises a fundamental question: Can MLLMs actively acquire missing evidence under incomplete information? To bridge this gap, we require the MLLMs to actively acquire missing evidence and iteratively refine decisions under incomplete information, by selecting a target image from a candidate pool without task-specific priors. To support systematic study, we propose GuessBench, a benchmark with both perception-oriented and knowledge-oriented images for evaluating active reasoning in MLLMs. We evaluate 20 superior MLLMs and find that performance on active reasoning lags far behind it on passive settings, indicating substantial room for improvement. Further analysis identifies fine-grained perception and timely decision-making as key challenges. Ablation studies show that perceptual enhancements benefit smaller models, whereas thinking-oriented methods provide consistent gains across model sizes. These results suggest promising directions for future research on multimodal active reasoning.
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cs.CL · cs.CV
Proceedings of the 64th Annual Meeting of the Association for Computational Linguistics (Volume 1: Long Papers) · 2026 · 正式发表
Shuyang Jiang, Yuhao Wang, Ya Zhang Shanghai Jiao Tong University, Yanfeng Wang Shanghai Jiao Tong University, Yu Wang Shanghai Jiao Tong University
Current critic-free RL methods for large reasoning models suffer from severe inefficiency when training on positive homogeneous prompts (where all rollouts are correct), resulting in waste of rollouts due to zero advantage estimates. We introduce a radically simple yet powerful solution to Mine intrinsic mastery (Miner), that repurposes the policy’s intrinsic uncertainty as a self-supervised reward signal, with no external supervision, auxiliary models, or additional inference cost. Our method pioneers two key innovations: (1) a token-level focal credit assignment mechanism that dynamically amplifies gradients on critical uncertain tokens while suppressing overconfident ones, and (2) adaptive advantage calibration to seamlessly integrate intrinsic and verifiable rewards. Evaluated across six reasoning benchmarks on Qwen3-4B and Qwen3-8B base models, Miner achieves state-of-the-art performance among the other four algorithms, yielding up to 4.58 absolute gains in Pass@1 and 6.66 gains in Pass@K compared to GRPO. Comparison with other methods targeted at exploration enhancement further discloses the superiority of the two newly proposed innovations. This demonstrates that latent uncertainty exploitation is both necessary and sufficient for efficient and scalable RL training of reasoning models. Code is available at https://github.com/pixas/Miner.
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cs.CL
Proceedings of the 64th Annual Meeting of the Association for Computational Linguistics (Volume 1: Long Papers) · 2026 · 正式发表
Yuhao Wang Nanyang Technological University, Ruiyang Ren, Yucheng Wang, Xin Zhao Renmin University of China, Jing Liu Baidu, Hua Wu, Haifeng Wang Baidu
Long-form question answering (LFQA) requires open-ended long-form responses that synthesize coherent, factually grounded content from multi-source evidence. This makes reinforcement learning (RL) reward design critical. The reward must be verifiable for faithful grounding and stable optimization. However, many standard rewards assume a unique target with an exact-match notion of correctness, which fits short-form QA and math but breaks in LFQA. As a result, current RAG systems still lack verifiable reward mechanisms, yielding unstable feedback signals and suboptimal optimization outcomes. We propose RioRAG, a framework for reinforced verifiable informativeness optimization. First, it defines informativeness as a measurable and externally verifiable objective for RL. Second, RioRAG uses nugget-centric verification with cross-source checks to enable self-evolution of smaller LLMs and to provide denser, action-discriminative rewards that mitigate reward sparsity and stabilize optimization. This formulation avoids handcrafted supervision for the policy model and strong teacher-model distillation, relying instead on externally verifiable feedback. Experiments on LongFact and RAGChecker show that RioRAG achieves higher factual recall and faithfulness, establishing verifiable reward modeling as a foundation for trustworthy long-form RAG. Our codes are available at https://github.com/RUCAIBox/RioRAG.
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cs.CL
Proceedings of the 64th Annual Meeting of the Association for Computational Linguistics (Volume 1: Long Papers) · 2026 · 正式发表