Ruilin Wang

Bo-Hong Wang, Baicheng Peng, Ruilin Wang et al.

Large language models (LLMs) exhibit strong natural-language reasoning abilities for clinical decision support, but struggle to effectively model structured longitudinal electronic health records (EHRs). In contrast, EHR foundation models can learn predictive patient representations, yet lack interpretable language-based reasoning. To bridge this gap, we propose ChatHealthAI, a multimodal reasoning framework that aligns structured EHR representations from a pretrained EHR foundation model with the semantic space of a frozen LLM through a task-aware resampler. By integrating longitudinal patient representations with refined clinical event descriptions, ChatHealthAI enables clinically grounded natural-language reasoning while maintaining accurate patient prediction. We evaluated ChatHealthAI on three clinical predictive tasks from the EHRSHOT benchmark. Results show that ChatHealthAI improves reasoning quality and interpretability while preserving competitive predictive performance. These findings highlight the potential of integrating EHR foundation models with pretrained LLMs for interpretable clinical prediction.

Lin Li, Qihang Zhang, Yiming Luo et al.

This work highlights that video world modeling, alongside vision-language pre-training, establishes a fresh and independent foundation for robot learning. Intuitively, video world models provide the ability to imagine the near future by understanding the causality between actions and visual dynamics. Inspired by this, we introduce LingBot-VA, an autoregressive diffusion framework that learns frame prediction and policy execution simultaneously. Our model features three carefully crafted designs: (1) a shared latent space, integrating vision and action tokens, driven by a Mixture-of-Transformers (MoT) architecture, (2) a closed-loop rollout mechanism, allowing for ongoing acquisition of environmental feedback with ground-truth observations, (3) an asynchronous inference pipeline, parallelizing action prediction and motor execution to support efficient control. We evaluate our model on both simulation benchmarks and real-world scenarios, where it shows significant promise in long-horizon manipulation, data efficiency in post-training, and strong generalizability to novel configurations. The code and model are made publicly available to facilitate the community.

Ruilin Wang, Huixia Li, Yuexiao Ma et al.

Inference latency stands as a critical bottleneck in the large-scale deployment of Large Language Models (LLMs). Speculative decoding methods have recently shown promise in accelerating inference without compromising the output distribution. However, existing work typically relies on a dualistic draft-verify framework and lacks rigorous theoretical grounding. In this paper, we introduce a novel \emph{polybasic} speculative decoding framework, underpinned by a comprehensive theoretical analysis. Specifically, we prove a fundamental theorem that characterizes the optimal inference time for multi-model speculative decoding systems, shedding light on how to extend beyond the dualistic approach to a more general polybasic paradigm. Through our theoretical investigation of multi-model token generation, we expose and optimize the interplay between model capabilities, acceptance lengths, and overall computational cost. Our framework supports both standalone implementation and integration with existing speculative techniques, leading to accelerated performance in practice. Experimental results across multiple model families demonstrate that our approach yields speedup ratios ranging from $3.31\times$ to $4.01\times$ for LLaMA2-Chat 7B, up to $3.87 \times$ for LLaMA3-8B, up to $4.43 \times$ for Vicuna-7B and up to $3.85 \times$ for Qwen2-7B -- all while preserving the original output distribution. We release our theoretical proofs and implementation code to facilitate further investigation into polybasic speculative decoding.

Yang Tan, Ruilin Wang, Banghao Wu et al.

Enzyme engineering enables the modification of wild-type proteins to meet industrial and research demands by enhancing catalytic activity, stability, binding affinities, and other properties. The emergence of deep learning methods for protein modeling has demonstrated superior results at lower costs compared to traditional approaches such as directed evolution and rational design. In mutation effect prediction, the key to pre-training deep learning models lies in accurately interpreting the complex relationships among protein sequence, structure, and function. This study introduces a retrieval-enhanced protein language model for comprehensive analysis of native properties from sequence and local structural interactions, as well as evolutionary properties from retrieved homologous sequences. The state-of-the-art performance of the proposed ProtREM is validated on over 2 million mutants across 217 assays from an open benchmark (ProteinGym). We also conducted post-hoc analyses of the model's ability to improve the stability and binding affinity of a VHH antibody. Additionally, we designed 10 new mutants on a DNA polymerase and conducted wet-lab experiments to evaluate their enhanced activity at higher temperatures. Both in silico and experimental evaluations confirmed that our method provides reliable predictions of mutation effects, offering an auxiliary tool for biologists aiming to evolve existing enzymes. The implementation is publicly available at https://github.com/tyang816/ProtREM.

Ziyi Tang, Ruilin Wang, Weixing Chen et al.

Despite the progress of foundation models, knowledge-based reasoning remains a persistent challenge due to their limited capacity for knowledge recall and inference. Existing methods primarily focus on encouraging these models to plan and solve problems or extensively sample reasoning chains independently. However, these methods often overlook conceptual errors and inferential fallacies, inevitably leading to a series of notorious issues such as misleading conclusions, cognitive biases, and reduced decision quality. While explicit modeling of causality is argued to hold promise in addressing these issues, contemporary research efforts have thus far fallen short in achieving causality-based foundation models. Drawing inspiration from the orchestration of diverse specialized agents collaborating to tackle intricate tasks, we propose a framework named Causal-Consistency Chain-of-Thought (CaCo-CoT) that harnesses multi-agent collaboration to bolster the faithfulness and causality of foundation models, involving a set of reasoners and evaluators. These agents collaboratively work within a reasoning-and-consensus paradigm to improve faithfulness. The reasoners are tasked with generating reasoning chains for knowledge-intensive problems by mimicking human causal reasoning. Meanwhile, the evaluator scrutinizes the causal consistency of a reasoner's reasoning chain from a non-causal and a counterfactual perspective. Our framework demonstrates significant superiority over state-of-the-art methods through extensive and comprehensive evaluations across text-based and multi-modal knowledge reasoning tasks (e.g., science question answering and commonsense reasoning).

Yang Tan, Chen Liu, Jingyuan Gao et al.

Natural language processing (NLP) has significantly influenced scientific domains beyond human language, including protein engineering, where pre-trained protein language models (PLMs) have demonstrated remarkable success. However, interdisciplinary adoption remains limited due to challenges in data collection, task benchmarking, and application. This work presents VenusFactory, a versatile engine that integrates biological data retrieval, standardized task benchmarking, and modular fine-tuning of PLMs. VenusFactory supports both computer science and biology communities with choices of both a command-line execution and a Gradio-based no-code interface, integrating $40+$ protein-related datasets and $40+$ popular PLMs. All implementations are open-sourced on https://github.com/tyang816/VenusFactory.

Xianda Guo, Chenming Zhang, Ruilin Wang et al.

Stereo matching plays a crucial role in enabling depth perception for autonomous driving and robotics. While recent years have witnessed remarkable progress in stereo matching algorithms, largely driven by learning-based methods and synthetic datasets, the generalization performance of these models remains constrained by the limited diversity of existing training data. To address these challenges, we present StereoCarla, a high-fidelity synthetic stereo dataset specifically designed for autonomous driving scenarios. Built on the CARLA simulator, StereoCarla incorporates a wide range of camera configurations, including diverse baselines, viewpoints, and sensor placements as well as varied environmental conditions such as lighting changes, weather effects, and road geometries. We conduct comprehensive cross-domain experiments across four standard evaluation datasets (KITTI2012, KITTI2015, Middlebury, ETH3D) and demonstrate that models trained on StereoCarla outperform those trained on 11 existing stereo datasets in terms of generalization accuracy across multiple benchmarks. Furthermore, when integrated into multi-dataset training, StereoCarla contributes substantial improvements to generalization accuracy, highlighting its compatibility and scalability. This dataset provides a valuable benchmark for developing and evaluating stereo algorithms under realistic, diverse, and controllable settings, facilitating more robust depth perception systems for autonomous vehicles. Code can be available at https://github.com/XiandaGuo/OpenStereo, and data can be available at https://xiandaguo.net/StereoCarla.

Yanbing Chen, Ruilin Wang, Zihao Yang et al.

Packing and shuffling tokens is a common practice in training auto-regressive language models (LMs) to prevent overfitting and improve efficiency. Typically documents are concatenated to chunks of maximum sequence length (MSL) and then shuffled. However setting the atom size, the length for each data chunk accompanied by random shuffling, to MSL may lead to contextual incoherence due to tokens from different documents being packed into the same chunk. An alternative approach is to utilize padding, another common data packing strategy, to avoid contextual incoherence by only including one document in each shuffled chunk. To optimize both packing strategies (concatenation vs padding), we investigated the optimal atom size for shuffling and compared their performance and efficiency. We found that matching atom size to MSL optimizes performance for both packing methods (concatenation and padding), and padding yields lower final perplexity (higher performance) than concatenation at the cost of more training steps and lower compute efficiency. This trade-off informs the choice of packing methods in training language models.

Zhiwei Jin, Xiaohui Song, Nan Wang et al.

In recent years, while cloud-based MLLMs such as QwenVL, InternVL, GPT-4o, Gemini, and Claude Sonnet have demonstrated outstanding performance with enormous model sizes reaching hundreds of billions of parameters, they significantly surpass the limitations in memory, power consumption, and computing capacity of edge devices such as mobile phones. This paper introduces AndesVL, a suite of mobile-side MLLMs with 0.6B to 4B parameters based on Qwen3's LLM and various visual encoders. We comprehensively outline the model architectures, training pipeline, and training data of AndesVL, which achieves first-tier performance across a wide range of open-source benchmarks, including fields such as text-rich image understanding, reasoning and math, multi-image comprehension, general VQA, hallucination mitigation, multilingual understanding, and GUI-related tasks when compared with state-of-the-art models of a similar scale. Furthermore, we introduce a 1+N LoRA architecture alongside a Quantization-Aware LoRA Fine-Tuning (QALFT) framework to facilitate efficient task adaptation and model compression during mobile-side deployment of AndesVL. Moreover, utilizing our cache eviction algorithm -- OKV -- along with customized speculative decoding and compression strategies, we achieve a 6.7x peak decoding speedup ratio, up to 30.9% memory reduction, and 1.8 bits-per-weight when deploying AndesVL-4B on MediaTek Dimensity 9500 chips. We release all models on https://huggingface.co/OPPOer.

Xianda Guo, Chenming Zhang, Youmin Zhang et al.

Stereo matching serves as a cornerstone in 3D vision, aiming to establish pixel-wise correspondences between stereo image pairs for depth recovery. Despite remarkable progress driven by deep neural architectures, current models often exhibit severe performance degradation when deployed in unseen domains, primarily due to the limited diversity of training data. In this work, we introduce StereoAnything, a data-centric framework that substantially enhances the zero-shot generalization capability of existing stereo models. Rather than devising yet another specialized architecture, we scale stereo training to an unprecedented level by systematically unifying heterogeneous stereo sources: (1) curated labeled datasets covering diverse environments, and (2) large-scale synthetic stereo pairs generated from unlabeled monocular images. Our mixed-data strategy delivers consistent and robust learning signals across domains, effectively mitigating dataset bias. Extensive zero-shot evaluations on four public benchmarks demonstrate that Stereo Anything achieves state-of-the-art generalization. This work paves the way towards truly universal stereo matching, offering a scalable data paradigm applicable to any stereo image pair. We extensively evaluate the zero-shot capabilities of our model on four public datasets, showcasing its impressive ability to generalize to any stereo image pair. Code is available at https://github.com/XiandaGuo/OpenStereo.

Junyong Lin, Lu Dai, Ruiqian Han et al.

Scientific researchers need intensive information about datasets to effectively evaluate and develop theories and methodologies. The information needs regarding datasets are implicitly embedded in particular research tasks, rather than explicitly expressed in search queries. However, existing scientific retrieval and question-answering (QA) datasets typically address straightforward questions, which do not align with the distribution of real-world research inquiries. To bridge this gap, we developed ScIRGen, a dataset generation framework for scientific QA \& retrieval that more accurately reflects the information needs of professional science researchers, and uses it to create a large-scale scientific retrieval-augmented generation (RAG) dataset with realistic queries, datasets and papers. Technically, we designed a dataset-oriented information extraction method that leverages academic papers to augment the dataset representation. We then proposed a question generation framework by employing cognitive taxonomy to ensure the quality of synthesized questions. We also design a method to automatically filter synthetic answers based on the perplexity shift of LLMs, which is highly aligned with human judgment of answers' validity. Collectively, these methodologies culminated in the creation of the 61k QA dataset, ScIRGen-Geo. We benchmarked representative methods on the ScIRGen-Geo dataset for their question-answering and retrieval capabilities, finding out that current methods still suffer from reasoning from complex questions. This work advances the development of more sophisticated tools to support the intricate information needs of the scientific community.

Chengkai Wu, Ruilin Wang, Yixin Zeng et al.

Humans seamlessly fuse anticipatory planning with immediate feedback to perform successive mobile manipulation tasks without stopping, achieving both high efficiency and reliability. Replicating this fluid and reliable behavior in robots remains fundamentally challenging, not only due to conflicts between long-horizon planning and real-time reactivity, but also because excessively pursuing efficiency undermines reliability in uncertain environments: it impairs stable perception and the potential for compensation, while also increasing the risk of unintended contact. In this work, we present a unified framework that synergizes efficiency and reliability for continuous mobile manipulation. It features a reliability-aware trajectory planner that embeds essential elements for reliable execution into spatiotemporal optimization, generating efficient and reliability-promising global trajectories. It is coupled with a phase-dependent switching controller that seamlessly transitions between global trajectory tracking for efficiency and task-error compensation for reliability. We also investigate a hierarchical initialization that facilitates online replanning despite the complexity of long-horizon planning problems. Real-world evaluations demonstrate that our approach enables efficient and reliable completion of successive tasks under uncertainty (e.g., dynamic disturbances, perception and control errors). Moreover, the framework generalizes to tasks with diverse end-effector constraints. Compared with state-of-the-art baselines, our method consistently achieves the highest efficiency while improving the task success rate by 26.67\%--81.67\%. Comprehensive ablation studies further validate the contribution of each component. The source code will be released.

Xianda Guo, Ruijun Zhang, Yiqun Duan et al.

Depth estimation is a fundamental task for 3D scene understanding in autonomous driving, robotics, and augmented reality. Existing depth datasets, such as KITTI, nuScenes, and DDAD, have advanced the field but suffer from limitations in diversity and scalability. As benchmark performance on these datasets approaches saturation, there is an increasing need for a new generation of large-scale, diverse, and cost-efficient datasets to support the era of foundation models and multi-modal learning. We present ROVR, a large-scale, diverse, and cost-efficient depth dataset designed to capture the complexity of real-world driving. ROVR comprises 200K high-resolution frames across highway, rural, and urban scenarios, spanning day/night and adverse weather conditions. A lightweight acquisition pipeline ensures scalable collection, while sparse but statistically sufficient ground truth supports robust training. Benchmarking with state-of-the-art monocular depth models reveals severe cross-dataset generalization failures: models achieving near-ceiling accuracy on KITTI degrade drastically on ROVR, and even when trained on ROVR, current methods fall short of saturation. These results highlight the unique challenges posed by ROVR-scene diversity, dynamic environments, and sparse ground truth, establishing it as a demanding new platform for advancing depth estimation and building models with stronger real-world robustness. Extensive ablation studies provide a more intuitive understanding of our dataset across different scenarios, lighting conditions, and generalized ability.

Ruilin Wang, Xiang Feng, Huiqun Yu et al.

In evolutionary multitasking, strategies such as crossover operators and skill factor assignment are critical for effective knowledge transfer. Existing improvements to crossover operators primarily focus on low-dimensional variable combinations, such as arithmetic crossover or partially mapped crossover, which are insufficient for modeling complex high-dimensional interactions.Moreover, static or semi-dynamic crossover strategies fail to adapt to the dynamic dependencies among tasks. In addition, current Multifactorial Evolutionary Algorithm frameworks often rely on fixed skill factor assignment strategies, lacking flexibility. To address these limitations, this paper proposes the Multifactorial Evolutionary Algorithm-Residual Learning (MFEA-RL) method based on residual learning. The method employs a Very Deep Super-Resolution (VDSR) model to generate high-dimensional residual representations of individuals, enhancing the modeling of complex relationships within dimensions. A ResNet-based mechanism dynamically assigns skill factors to improve task adaptability, while a random mapping mechanism efficiently performs crossover operations and mitigates the risk of negative transfer. Theoretical analysis and experimental results show that MFEA-RL outperforms state-of-the-art multitasking algorithms. It excels in both convergence and adaptability on standard evolutionary multitasking benchmarks, including CEC2017-MTSO and WCCI2020-MTSO. Additionally, its effectiveness is validated through a real-world application scenario.

Wentao Wan, Zhuojie Yang, Yongcan Chen et al.

Deductive reasoning is a crucial logical capability that assists us in solving complex problems based on existing knowledge. Although augmented by Chain-of-Thought prompts, Large Language Models (LLMs) might not follow the correct reasoning paths. Enhancing the deductive reasoning abilities of LLMs, and leveraging their extensive built-in knowledge for various reasoning tasks, remains an open question. Attempting to mimic the human deductive reasoning paradigm, we propose a multi-stage Syllogistic-Reasoning Framework of Thought (SR-FoT) that enables LLMs to perform syllogistic deductive reasoning to handle complex knowledge-based reasoning tasks. Our SR-FoT begins by interpreting the question and then uses the interpretation and the original question to propose a suitable major premise. It proceeds by generating and answering minor premise questions in two stages to match the minor premises. Finally, it guides LLMs to use the previously generated major and minor premises to perform syllogistic deductive reasoning to derive the answer to the original question. Extensive and thorough experiments on knowledge-based reasoning tasks have demonstrated the effectiveness and advantages of our SR-FoT.

Tianshuo Xu, Peng Mi, Ruilin Wang et al.

Diffusion models (DMs) are a powerful generative framework that have attracted significant attention in recent years. However, the high computational cost of training DMs limits their practical applications. In this paper, we start with a consistency phenomenon of DMs: we observe that DMs with different initializations or even different architectures can produce very similar outputs given the same noise inputs, which is rare in other generative models. We attribute this phenomenon to two factors: (1) the learning difficulty of DMs is lower when the noise-prediction diffusion model approaches the upper bound of the timestep (the input becomes pure noise), where the structural information of the output is usually generated; and (2) the loss landscape of DMs is highly smooth, which implies that the model tends to converge to similar local minima and exhibit similar behavior patterns. This finding not only reveals the stability of DMs, but also inspires us to devise two strategies to accelerate the training of DMs. First, we propose a curriculum learning based timestep schedule, which leverages the noise rate as an explicit indicator of the learning difficulty and gradually reduces the training frequency of easier timesteps, thus improving the training efficiency. Second, we propose a momentum decay strategy, which reduces the momentum coefficient during the optimization process, as the large momentum may hinder the convergence speed and cause oscillations due to the smoothness of the loss landscape. We demonstrate the effectiveness of our proposed strategies on various models and show that they can significantly reduce the training time and improve the quality of the generated images.