Knowledge Graph Question Answering (KGQA) systems rely on high-quality benchmarks to evaluate complex multi-hop reasoning. However, despite their widespread use, popular datasets such as WebQSP and CWQ suffer from critical quality issues, including inaccurate or incomplete ground-truth annotations, poorly constructed questions that are ambiguous, trivial, or unanswerable, and outdated or inconsistent knowledge. Through a manual audit of 16 popular KGQA datasets--including WebQSP and CWQ--we find that the average factual correctness rate is only 57%. To address these issues, we introduce KGQAGen, an LLM-in-the-loop framework that systematically resolves these pitfalls. KGQAGen combines structured knowledge grounding, LLM-guided generation, and symbolic verification to produce challenging and verifiable QA instances. Using KGQAGen, we construct KGQAGen-10k, a 10K-scale benchmark grounded in Wikidata, and evaluate a diverse set of KG-RAG models. Experimental results demonstrate that even state-of-the-art systems struggle on this benchmark, highlighting its ability to expose limitations of existing models. Our findings advocate for more rigorous benchmark construction and position KGQAGen as a scalable framework for advancing KGQA evaluation.

Recent studies have demonstrated the feasibility of modeling single-cell data as natural languages and the potential of leveraging powerful large language models (LLMs) for understanding cell biology. However, a comprehensive evaluation of LLMs' performance on language-driven single-cell analysis tasks still remains unexplored. Motivated by this challenge, we introduce CellVerse, a unified language-centric question-answering benchmark that integrates four types of single-cell multi-omics data and encompasses three hierarchical levels of single-cell analysis tasks: cell type annotation (cell-level), drug response prediction (drug-level), and perturbation analysis (gene-level). Going beyond this, we systematically evaluate the performance across 14 open-source and closed-source LLMs ranging 160M $\rightarrow$ 671B on CellVerse. Remarkably, the experimental results reveal: (1) Existing specialist models (C2S-Pythia) fail to make reasonable decisions across all sub-tasks within CellVerse, while generalist models such as Qwen, Llama, GPT, and DeepSeek family models exhibit preliminary understanding capabilities within the realm of cell biology.

Low-Rank Adaptation (LoRA) offers a cost-effective solution for fine-tuning large language models (LLMs), but it often produces overconfident predictions in data-scarce few-shot settings. To address this issue, several classical statistical learning approaches have been repurposed for scalable uncertainty-aware LoRA fine-tuning. However, these approaches neglect how input characteristics affect the predictive uncertainty estimates.

Existing methods to enhance the reasoning capability of large language models predominantly rely on supervised fine-tuning (SFT) followed by reinforcement learning (RL) on reasoning-specific data. These approaches critically depend on external supervisions--such as labeled reasoning traces, verified golden answers, or pre-trained reward models. In this work, we propose Entropy Minimized Policy Optimization (EMPO), which makes an early attempt at fully unsupervised LLM reasoning incentivization. By minimizing the semantic entropy of LLMs on unlabeled questions, EMPO achieves competitive performance compared to supervised counterparts. Specifically, without any supervised signals, EMPO boosts the accuracy of Qwen2.5-Math-7B

As major progress in LLM-based long-form text generation enables paradigms such as retrieval-augmented generation (RAG) and inference-time scaling, safely incorporating private information into the generation remains a critical open question.

Automatic summarization systems have advanced rapidly with large language models (LLMs), yet they still lack reliable guarantees on inclusion of critical content in high-stakes domains like healthcare, law, and finance. In this work, we introduce Conformal Importance Summarization, the first framework for importance-preserving summary generation which uses conformal prediction to provide rigorous, distribution-free coverage guarantees. By calibrating thresholds on sentence-level importance scores, we enable extractive document summarization with user-specified coverage and recall rates over critical content. Our method is model-agnostic, requires only a small calibration set, and seamlessly integrates with existing black-box LLMs. Experiments on established summarization benchmarks demonstrate that Conformal Importance Summarization achieves the theoretically assured information coverage rate. Our work suggests that Conformal Importance Summarization can be combined with existing techniques to achieve reliable, controllable automatic summarization, paving the way for safer deployment of AI summarization tools in critical applications.

Despite the remarkable capabilities of large language models (LLMs) across diverse applications, they remain vulnerable to generating content that violates safety regulations and policies. To mitigate these risks, LLMs undergo safety alignment; however, they can still be effectively jailbroken. Off-the-shelf guardrail models are commonly deployed to monitor generations, but these models primarily focus on detection rather than ensuring safe decoding of LLM outputs. Moreover, existing efforts lack rigorous safety guarantees, which are crucial for the universal deployment of LLMs and certifiable compliance with regulatory standards. In this paper, we propose a Claim-based Stream Decoding (CSD) algorithm coupled with a statistical risk guarantee framework using conformal analysis.

In the molecular domain, numerous studies have explored the use of multimodal large language models (LLMs) to construct a general-purpose, multi-task molecular model. However, these efforts are still far from achieving a truly universal molecular model. We identify three key challenges in this endeavor: (1) Existing molecular task datasets are typically small in scale and lack comprehensive domain coverage.

Large reasoning models (LRMs) like OpenAI-o1 have shown impressive capabilities in natural language reasoning. However, these models frequently demonstrate inefficiencies or inaccuracies when tackling complex mathematical operations. While integrating computational tools such as Code Interpreters (CIs) offers a promising solution, it introduces a critical challenge: a conflict between the model's internal, probabilistic reasoning and the external, deterministic knowledge provided by the CI, which often leads models to unproductive deliberation. To overcome this, we introduce CoRT (Code-Optimized Reasoning Training), a post-training framework designed to teach LRMs to effectively utilize CIs.

Fine-tuning pre-trained Large Language Models (LLMs) for downstream tasks using First-Order (FO) optimizers presents significant computational challenges. Parameter-Efficient Fine-Tuning~(PEFT) methods have been proposed to address these challenges by freezing most model parameters and training only a small subset. While PEFT is efficient, it may not outperform full fine-tuning when high task-specific performance is required. Zeroth-Order (ZO) methods offer an alternative for fine-tuning the entire pre-trained model by approximating gradients using only the forward pass, thus eliminating the computational burden of back-propagation, % in first-order methods, but they converge painfully slowly and are very sensitive to the choice of task prompts. We bridge these worlds with Bilevel ZOFO, a penalty based bilevel formulation that treats adapter parameters as a lower level learner coupled to an upper level ZO optimizer of the full backbone.