Causal Representation Meets Stochastic Modeling under Generic Geometry

Learning meaningful causal representations from observations has emerged as a crucial task for facilitating machine learning applications and driving scientific discoveries in fields such as climate science, biology, and physics. This process involves disentangling high-level latent variables and their causal relationships from low-level observations. Previous work in this area that achieves identifiability typically focuses on cases where the observations are either i.i.d. or follow a latent discrete-time process. Nevertheless, many real-world settings require identifying latent variables that are continuous-time stochastic processes (e.g., multivariate point processes). To this end, we develop identifiable causal representation learning for continuous-time latent stochastic point processes. We study its identifiability by analyzing the geometry of the parameter space. Furthermore, we develop MUTATE, an identifiable variational autoencoder framework with a time-adaptive transition module to infer stochastic dynamics. Across simulated and empirical studies, we find that MUTATE can effectively answer scientific questions, such as the accumulation of mutations in genomics and the mechanisms driving neuron spike triggers in response to time-varying dynamics.

Learning Modal-Mixed Chain-of-Thought Reasoning with Latent Embeddings

We study how to extend chain-of-thought (CoT) beyond language to better handle multimodal reasoning. While CoT helps LLMs and VLMs articulate intermediate steps, its text-only form often fails on vision-intensive problems where key intermediate states are inherently visual. We introduce modal-mixed CoT, which interleaves textual tokens with compact visual sketches represented as latent embeddings. To bridge the modality gap without eroding the original knowledge and capability of the VLM, we use the VLM itself as an encoder and train the language backbone to reconstruct its own intermediate vision embeddings, to guarantee the semantic alignment of the visual latent space. We further attach a diffusion-based latent decoder, invoked by a special control token and conditioned on hidden states from the VLM. In this way, the diffusion head carries fine-grained perceptual details while the VLM specifies high-level intent, which cleanly disentangles roles and reduces the optimization pressure of the VLM. Training proceeds in two stages: supervised fine-tuning on traces that interleave text and latents with a joint next-token and latent-reconstruction objective, followed by reinforcement learning that teaches when to switch modalities and how to compose long reasoning chains. Extensive experiments across 11 diverse multimodal reasoning tasks, demonstrate that our method yields better performance than language-only and other CoT methods. Our code will be publicly released.

Factored Causal Representation Learning for Robust Reward Modeling in RLHF

A reliable reward model is essential for aligning large language models with human preferences through reinforcement learning from human feedback. However, standard reward models are susceptible to spurious features that are not causally related to human labels. This can lead to reward hacking, where high predicted reward does not translate into better behavior. In this work, we address this problem from a causal perspective by proposing a factored representation learning framework that decomposes the model's contextual embedding into (1) causal factors that are sufficient for reward prediction and (2) non-causal factors that capture reward-irrelevant attributes such as length or sycophantic bias. The reward head is then constrained to depend only on the causal component. In addition, we introduce an adversarial head trained to predict reward from the non-causal factors, while applying gradient reversal to discourage them from encoding reward-relevant information. Experiments on both mathematical and dialogue tasks demonstrate that our method learns more robust reward models and consistently improves downstream RLHF performance over state-of-the-art baselines. Analyses on length and sycophantic bias further validate the effectiveness of our method in mitigating reward hacking behaviors.

Ability Transfer and Recovery via Modularized Parameters Localization

Large language models can be continually pre-trained or fine-tuned to improve performance in specific domains, languages, or skills, but this specialization often degrades other capabilities and may cause catastrophic forgetting. We investigate how abilities are distributed within LLM parameters by analyzing module activations under domain- and language-specific inputs for closely related models. Across layers and modules, we find that ability-related activations are highly concentrated in a small set of channels (typically <5\%), and these channels are largely disentangled with good sufficiency and stability. Building on these observations, we propose ACT (Activation-Guided Channel-wise Ability Transfer), which localizes ability-relevant channels via activation differences and selectively transfers only the corresponding parameters, followed by lightweight fine-tuning for compatibility. Experiments on multilingual mathematical and scientific reasoning show that ACT can recover forgotten abilities while preserving retained skills. It can also merge multiple specialized models to integrate several abilities into a single model with minimal interference. Our code and data will be publicly released.

ToolGym: an Open-world Tool-using Environment for Scalable Agent Testing and Data Curation

Tool-using LLM agents still struggle in open-world settings with large tool pools, long-horizon objectives, wild constraints, and unreliable tool states. For scalable and realistic training and testing, we introduce an open-world tool-using environment, built on 5,571 format unified tools across 204 commonly used apps. It includes a task creation engine that synthesizes long-horizon, multi-tool workflows with wild constraints, and a state controller that injects interruptions and failures to stress-test robustness. On top of this environment, we develop a tool select-then-execute agent framework with a planner-actor decomposition to separate deliberate reasoning and self-correction from step-wise execution. Comprehensive evaluation of state-of-the-art LLMs reveals the misalignment between tool planning and execution abilities, the constraint following weakness of existing LLMs, and DeepSeek-v3.2's strongest robustness. Finally, we collect 1,170 trajectories from our environment to fine-tune LLMs, achieving superior performance to baselines using 119k samples, indicating the environment's value as both a realistic benchmark and a data engine for tool-using agents. Our code and data will be publicly released.

Transformer Is Inherently a Causal Learner

We reveal that transformers trained in an autoregressive manner naturally encode time-delayed causal structures in their learned representations. When predicting future values in multivariate time series, the gradient sensitivities of transformer outputs with respect to past inputs directly recover the underlying causal graph, without any explicit causal objectives or structural constraints. We prove this connection theoretically under standard identifiability conditions and develop a practical extraction method using aggregated gradient attributions. On challenging cases such as nonlinear dynamics, long-term dependencies, and non-stationary systems, this approach greatly surpasses the performance of state-of-the-art discovery algorithms, especially as data heterogeneity increases, exhibiting scaling potential where causal accuracy improves with data volume and heterogeneity, a property traditional methods lack. This unifying view lays the groundwork for a future paradigm where causal discovery operates through the lens of foundation models, and foundation models gain interpretability and enhancement through the lens of causality.

DEPTH: Hallucination-Free Relation Extraction via Dependency-Aware Sentence Simplification and Two-tiered Hierarchical Refinement

Relation extraction enables the construction of structured knowledge for many downstream applications. While large language models (LLMs) have shown great promise in this domain, most existing methods concentrate on relation classification, which predicts the semantic relation type between a related entity pair. However, we observe that LLMs often struggle to reliably determine whether a relation exists, especially in cases involving complex sentence structures or intricate semantics, which leads to spurious predictions. Such hallucinations can introduce noisy edges in knowledge graphs, compromising the integrity of structured knowledge and downstream reliability. To address these challenges, we propose DEPTH, a framework that integrates Dependency-aware sEntence simPlification and Two-tiered Hierarchical refinement into the relation extraction pipeline. Given a sentence and its candidate entity pairs, DEPTH operates in two stages: (1) the Grounding module extracts relations for each pair by leveraging their shortest dependency path, distilling the sentence into a minimal yet coherent relational context that reduces syntactic noise while preserving key semantics; (2) the Refinement module aggregates all local predictions and revises them based on a holistic understanding of the sentence, correcting omissions and inconsistencies. We further introduce a causality-driven reward model that mitigates reward hacking by disentangling spurious correlations, enabling robust fine-tuning via reinforcement learning with human feedback. Experiments on six benchmarks demonstrate that DEPTH reduces the average hallucination rate to 7.0\% while achieving a 17.2\% improvement in average F1 score over state-of-the-art baselines.

Activation Control for Efficiently Eliciting Long Chain-of-thought Ability of Language Models

Despite the remarkable reasoning performance, eliciting the long chain-of-thought (CoT) ability in large language models (LLMs) typically requires costly reinforcement learning or supervised fine-tuning on high-quality distilled data. We investigate the internal mechanisms behind this capability and show that a small set of high-impact activations in the last few layers largely governs long-form reasoning attributes, such as output length and self-reflection. By simply amplifying these activations and inserting "wait" tokens, we can invoke the long CoT ability without any training, resulting in significantly increased self-reflection rates and accuracy. Moreover, we find that the activation dynamics follow predictable trajectories, with a sharp rise after special tokens and a subsequent exponential decay. Building on these insights, we introduce a general training-free activation control technique. It leverages a few contrastive examples to identify key activations, and employs simple analytic functions to modulate their values at inference time to elicit long CoTs. Extensive experiments confirm the effectiveness of our method in efficiently eliciting long CoT reasoning in LLMs and improving their performance. Additionally, we propose a parameter-efficient fine-tuning method that trains only a last-layer activation amplification module and a few LoRA layers, outperforming full LoRA fine-tuning on reasoning benchmarks with significantly fewer parameters. Our code and data are publicly released.

Towards General Continuous Memory for Vision-Language Models

Language models (LMs) and their extension, vision-language models (VLMs), have achieved remarkable performance across various tasks. However, they still struggle with complex reasoning tasks that require multimodal or multilingual real-world knowledge. To support such capabilities, an external memory system that can efficiently provide relevant multimodal information is essential. Existing approaches generally concatenate image and text tokens into a long sequence as memory, which, however, may drastically increase context length and even degrade performance. In contrast, we propose using continuous memory, a compact set of dense embeddings to more effectively and efficiently represent multimodal and multilingual knowledge. Our key insight is that a VLM can serve as its own continuous memory encoder. We empirically show that this design improves performance on complex multimodal reasoning tasks. Building on this, we introduce a data-efficient and parameter-efficient method to fine-tune the VLM into a memory encoder, requiring only 1.2% of the model's parameters and a small corpus of 15.6K self-synthesized samples. Our approach CoMEM utilizes VLM's original capabilities to encode arbitrary multimodal and multilingual knowledge into just 8 continuous embeddings. Since the inference-time VLM remains frozen, our memory module is plug-and-play and can be flexibly integrated as needed. Extensive experiments across eight multimodal reasoning benchmarks demonstrate the effectiveness of our approach.

A Fast Kernel-based Conditional Independence test with Application to Causal Discovery

Kernel-based conditional independence (KCI) testing is a powerful nonparametric method commonly employed in causal discovery tasks. Despite its flexibility and statistical reliability, cubic computational complexity limits its application to large datasets. To address this computational bottleneck, we propose \textit{FastKCI}, a scalable and parallelizable kernel-based conditional independence test that utilizes a mixture-of-experts approach inspired by embarrassingly parallel inference techniques for Gaussian processes. By partitioning the dataset based on a Gaussian mixture model over the conditioning variables, FastKCI conducts local KCI tests in parallel, aggregating the results using an importance-weighted sampling scheme. Experiments on synthetic datasets and benchmarks on real-world production data validate that FastKCI maintains the statistical power of the original KCI test while achieving substantial computational speedups. FastKCI thus represents a practical and efficient solution for conditional independence testing in causal inference on large-scale data.