ScDiVa: Masked Discrete Diffusion for Joint Modeling of Single-Cell Identity and Expression

Single-cell RNA-seq profiles are high-dimensional, sparse, and unordered, causing autoregressive generation to impose an artificial ordering bias and suffer from error accumulation. To address this, we propose scDiVa, a masked discrete diffusion foundation model that aligns generation with the dropout-like corruption process by defining a continuous-time forward masking mechanism in token space. ScDiVa features a bidirectional denoiser that jointly models discrete gene identities and continuous values, utilizing entropy-normalized serialization and a latent anchor token to maximize information efficiency and preserve global cell identity. The model is trained via depth-invariant time sampling and a dual denoising objective to simulate varying sparsity levels while ensuring precise recovery of both identity and magnitude. Pre-trained on 59 million cells, scDiVa achieves strong transfer performance across major benchmarks, including batch integration, cell type annotation, and perturbation response prediction. These results suggest that masked discrete diffusion serves as a biologically coherent and effective alternative to autoregression.

MathDoc: Benchmarking Structured Extraction and Active Refusal on Noisy Mathematics Exam Papers

The automated extraction of structured questions from paper-based mathematics exams is fundamental to intelligent education, yet remains challenging in real-world settings due to severe visual noise. Existing benchmarks mainly focus on clean documents or generic layout analysis, overlooking both the structural integrity of mathematical problems and the ability of models to actively reject incomplete inputs. We introduce MathDoc, the first benchmark for document-level information extraction from authentic high school mathematics exam papers. MathDoc contains \textbf{3,609} carefully curated questions with real-world artifacts and explicitly includes unrecognizable samples to evaluate active refusal behavior. We propose a multi-dimensional evaluation framework covering stem accuracy, visual similarity, and refusal capability. Experiments on SOTA MLLMs, including Qwen3-VL and Gemini-2.5-Pro, show that although end-to-end models achieve strong extraction performance, they consistently fail to refuse illegible inputs, instead producing confident but invalid outputs. These results highlight a critical gap in current MLLMs and establish MathDoc as a benchmark for assessing model reliability under degraded document conditions. Our project repository is available at \href{https://github.com/winnk123/papers/tree/master}{GitHub repository}

OpenAI GPT-5 System Card

This is the system card published alongside the OpenAI GPT-5 launch, August 2025. GPT-5 is a unified system with a smart and fast model that answers most questions, a deeper reasoning model for harder problems, and a real-time router that quickly decides which model to use based on conversation type, complexity, tool needs, and explicit intent (for example, if you say 'think hard about this' in the prompt). The router is continuously trained on real signals, including when users switch models, preference rates for responses, and measured correctness, improving over time. Once usage limits are reached, a mini version of each model handles remaining queries. This system card focuses primarily on gpt-5-thinking and gpt-5-main, while evaluations for other models are available in the appendix. The GPT-5 system not only outperforms previous models on benchmarks and answers questions more quickly, but -- more importantly -- is more useful for real-world queries. We've made significant advances in reducing hallucinations, improving instruction following, and minimizing sycophancy, and have leveled up GPT-5's performance in three of ChatGPT's most common uses: writing, coding, and health. All of the GPT-5 models additionally feature safe-completions, our latest approach to safety training to prevent disallowed content. Similarly to ChatGPT agent, we have decided to treat gpt-5-thinking as High capability in the Biological and Chemical domain under our Preparedness Framework, activating the associated safeguards. While we do not have definitive evidence that this model could meaningfully help a novice to create severe biological harm -- our defined threshold for High capability -- we have chosen to take a precautionary approach.

Seed-Prover 1.5: Mastering Undergraduate-Level Theorem Proving via Learning from Experience

Large language models have recently made significant progress to generate rigorous mathematical proofs. In contrast, utilizing LLMs for theorem proving in formal languages (such as Lean) remains challenging and computationally expensive, particularly when addressing problems at the undergraduate level and beyond. In this work, we present \textbf{Seed-Prover 1.5}, a formal theorem-proving model trained via large-scale agentic reinforcement learning, alongside an efficient test-time scaling (TTS) workflow. Through extensive interactions with Lean and other tools, the model continuously accumulates experience during the RL process, substantially enhancing the capability and efficiency of formal theorem proving. Furthermore, leveraging recent advancements in natural language proving, our TTS workflow efficiently bridges the gap between natural and formal languages. Compared to state-of-the-art methods, Seed-Prover 1.5 achieves superior performance with a smaller compute budget. It solves \textbf{88\% of PutnamBench} (undergraduate-level), \textbf{80\% of Fate-H} (graduate-level), and \textbf{33\% of Fate-X} (PhD-level) problems. Notably, using our system, we solved \textbf{11 out of 12 problems} from Putnam 2025 within 9 hours. Our findings suggest that scaling learning from experience, driven by high-quality formal feedback, holds immense potential for the future of formal mathematical reasoning.

Geometric Prior-Guided Federated Prompt Calibration

Federated Prompt Learning (FPL) offers a parameter-efficient solution for collaboratively training large models, but its performance is severely hindered by data heterogeneity, which causes locally trained prompts to become biased. Existing methods, focusing on aggregation or regularization, fail to address this root cause of local training bias. To this end, we propose Geometry-Guided Text Prompt Calibration (GGTPC), a novel framework that directly corrects this bias by providing clients with a global geometric prior. This prior, representing the shape of the global data distribution derived from the covariance matrix, is reconstructed on the server in a privacy-preserving manner. Clients then use a novel Geometry-Prior Calibration Layer (GPCL) to align their local feature distributions with this global prior during training. Extensive experiments show GGTPC's effectiveness. On the label-skewed CIFAR-100 dataset ($β$=0.1), it outperforms the state-of-the-art by 2.15\%. Under extreme skew ($β$=0.01), it improves upon the baseline by 9.17\%. Furthermore, as a plug-and-play module on the domain-skewed Office-Home dataset, it boosts FedAvg's performance by 4.60\%. These results demonstrate that GGTPC effectively mitigates data heterogeneity by correcting the fundamental local training bias, serving as a versatile module to enhance various FL algorithms.

EVA-Net: Interpretable Brain Age Prediction via Continuous Aging Prototypes from EEG

The brain age is a key indicator of brain health. While electroencephalography (EEG) is a practical tool for this task, existing models struggle with the common challenge of imperfect medical data, such as learning a ``normal'' baseline from weakly supervised, healthy-only cohorts. This is a critical anomaly detection task for identifying disease, but standard models are often black boxes lacking an interpretable structure. We propose EVA-Net, a novel framework that recasts brain age as an interpretable anomaly detection problem. EVA-Net uses an efficient, sparsified-attention Transformer to model long EEG sequences. To handle noise and variability in imperfect data, it employs a Variational Information Bottleneck to learn a robust, compressed representation. For interpretability, this representation is aligned to a continuous prototype network that explicitly learns the normative healthy aging manifold. Trained on 1297 healthy subjects, EVA-Net achieves state-of-the-art accuracy. We validated its anomaly detection capabilities on an unseen cohort of 27 MCI and AD patients. This pathological group showed significantly higher brain-age gaps and a novel Prototype Alignment Error, confirming their deviation from the healthy manifold. EVA-Net provides an interpretable framework for healthcare intelligence using imperfect medical data.

FLEX: Continuous Agent Evolution via Forward Learning from Experience

Autonomous agents driven by Large Language Models (LLMs) have revolutionized reasoning and problem-solving but remain static after training, unable to grow with experience as intelligent beings do during deployment. We introduce Forward Learning with EXperience (FLEX), a gradient-free learning paradigm that enables LLM agents to continuously evolve through accumulated experience. Specifically, FLEX cultivates scalable and inheritable evolution by constructing a structured experience library through continual reflection on successes and failures during interaction with the environment. FLEX delivers substantial improvements on mathematical reasoning, chemical retrosynthesis, and protein fitness prediction (up to 23% on AIME25, 10% on USPTO50k, and 14% on ProteinGym). We further identify a clear scaling law of experiential growth and the phenomenon of experience inheritance across agents, marking a step toward scalable and inheritable continuous agent evolution. Project Page: https://flex-gensi-thuair.github.io.

ThinkDial: An Open Recipe for Controlling Reasoning Effort in Large Language Models

Large language models (LLMs) with chain-of-thought reasoning have demonstrated remarkable problem-solving capabilities, but controlling their computational effort remains a significant challenge for practical deployment. Recent proprietary systems like OpenAI's gpt-oss series have introduced discrete operational modes for intuitive reasoning control, but the open-source community has largely failed to achieve such capabilities. In this paper, we introduce ThinkDial, the first open-recipe end-to-end framework that successfully implements gpt-oss-style controllable reasoning through discrete operational modes. Our system enables seamless switching between three distinct reasoning regimes: High mode (full reasoning capability), Medium mode (50 percent token reduction with <10 percent performance degradation), and Low mode (75 percent token reduction with <15 percent performance degradation). We achieve this through an end-to-end training paradigm that integrates budget-mode control throughout the entire pipeline: budget-mode supervised fine-tuning that embeds controllable reasoning capabilities directly into the learning process, and two-phase budget-aware reinforcement learning with adaptive reward shaping. Extensive experiments demonstrate that ThinkDial achieves target compression-performance trade-offs with clear response length reductions while maintaining performance thresholds. The framework also exhibits strong generalization capabilities on out-of-distribution tasks.

ShortListing Model: A Streamlined SimplexDiffusion for Discrete Variable Generation

Generative modeling of discrete variables is challenging yet crucial for applications in natural language processing and biological sequence design. We introduce the Shortlisting Model (SLM), a novel simplex-based diffusion model inspired by progressive candidate pruning. SLM operates on simplex centroids, reducing generation complexity and enhancing scalability. Additionally, SLM incorporates a flexible implementation of classifier-free guidance, enhancing unconditional generation performance. Extensive experiments on DNA promoter and enhancer design, protein design, character-level and large-vocabulary language modeling demonstrate the competitive performance and strong potential of SLM. Our code can be found at https://github.com/GenSI-THUAIR/SLM

Scaling Linear Attention with Sparse State Expansion

The Transformer architecture, despite its widespread success, struggles with long-context scenarios due to quadratic computation and linear memory growth. While various linear attention variants mitigate these efficiency constraints by compressing context into fixed-size states, they often degrade performance in tasks such as in-context retrieval and reasoning. To address this limitation and achieve more effective context compression, we propose two key innovations. First, we introduce a row-sparse update formulation for linear attention by conceptualizing state updating as information classification. This enables sparse state updates via softmax-based top-$k$ hard classification, thereby extending receptive fields and reducing inter-class interference. Second, we present Sparse State Expansion (SSE) within the sparse framework, which expands the contextual state into multiple partitions, effectively decoupling parameter size from state capacity while maintaining the sparse classification paradigm. Our design, supported by efficient parallelized implementations, yields effective classification and discriminative state representations. We extensively validate SSE in both pure linear and hybrid (SSE-H) architectures across language modeling, in-context retrieval, and mathematical reasoning benchmarks. SSE demonstrates strong retrieval performance and scales favorably with state size. Moreover, after reinforcement learning (RL) training, our 2B SSE-H model achieves state-of-the-art mathematical reasoning performance among small reasoning models, scoring 64.7 on AIME24 and 51.3 on AIME25, significantly outperforming similarly sized open-source Transformers. These results highlight SSE as a promising and efficient architecture for long-context modeling.