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Shuigeng Zhou

Publications and source records attributed to Shuigeng Zhou.

At least 37 records · Page 2Linked to original sources
arXiv2026

Is Compression Really Linear with Code Intelligence?

Understanding the relationship between data compression and the capabilities of Large Language Models (LLMs) is crucial, especially in specialized domains like code intelligence. Prior work posited a linear relationship between compression and general intelligence. However, it overlooked the multifaceted nature of code that encompasses diverse programming languages and tasks, and struggled with fair evaluation of modern Code LLMs. We address this by evaluating a diverse array of open-source Code LLMs on comprehensive multi-language, multi-task code benchmarks. To address the challenge of efficient and fair evaluation of pre-trained LLMs' code intelligence, we introduce \textit{Format Annealing}, a lightweight, transparent training methodology designed to assess the intrinsic capabilities of these pre-trained models equitably. Compression efficacy, measured as bits-per-character (BPC), is determined using a novel, large-scale, and previously unseen code validation set derived from GitHub. Our empirical results reveal a fundamental logarithmic relationship between measured code intelligence and BPC. This finding refines prior hypotheses of linearity, which we suggest are likely observations of the logarithmic curve's tail under specific, limited conditions. Our work provides a more nuanced understanding of compression's role in developing code intelligence and contributes a robust evaluation framework in the code domain.

cs.CL↗
arXiv2026

ADS-POI: Agentic Spatiotemporal State Decomposition for Next Point-of-Interest Recommendation

Next point-of-interest (POI) recommendation requires modeling user mobility as a spatiotemporal sequence, where different behavioral factors may evolve at different temporal and spatial scales. Most existing methods compress a user's history into a single latent representation, which tends to entangle heterogeneous signals such as routine mobility patterns, short-term intent, and temporal regularities. This entanglement limits the flexibility of state evolution and reduces the model's ability to adapt to diverse decision contexts. We propose ADS-POI, a spatiotemporal state decomposition framework for next POI recommendation. ADS-POI represents a user with multiple parallel evolving latent sub-states, each governed by its own spatiotemporal transition dynamics. These sub-states are selectively aggregated through a context-conditioned mechanism to form the decision state used for prediction. This design enables different behavioral components to evolve at different rates while remaining coordinated under the current spatiotemporal context. Extensive experiments on three real-world benchmark datasets from Foursquare and Gowalla demonstrate that ADS-POI consistently outperforms strong state-of-the-art baselines under a full-ranking evaluation protocol. The results show that decomposing user behavior into multiple spatiotemporally aware states leads to more effective and robust next POI recommendation. Our code is available at https://github.com/YuZhenyuLindy/ADS-POI.git.

cs.IR↗
arXiv2026

BioBridge: Bridging Proteins and Language for Enhanced Biological Reasoning with LLMs

Existing Protein Language Models (PLMs) often suffer from limited adaptability to multiple tasks and exhibit poor generalization across diverse biological contexts. In contrast, general-purpose Large Language Models (LLMs) lack the capability to interpret protein sequences and fall short in domain-specific knowledge, limiting their capacity for effective biosemantic reasoning. To combine the advantages of both, we propose BioBridge, a domain-adaptive continual pretraining framework for protein understanding. This framework employs Domain-Incremental Continual Pre-training (DICP) to infuse protein domain knowledge and general reasoning corpus into a LLM simultaneously, effectively mitigating catastrophic forgetting. Cross-modal alignment is achieved via a PLM-Projector-LLM pipeline, which maps protein sequence embeddings into the semantic space of the language model. Ultimately, an end-to-end optimization is adopted to uniformly support various tasks, including protein property prediction and knowledge question-answering. Our proposed BioBridge demonstrates performance comparable to that of mainstream PLMs on multiple protein benchmarks, such as EC and BindingDB. It also achieves results on par with LLMs on general understanding tasks like MMLU and RACE. This showcases its innovative advantage of combining domain-specific adaptability with general-purpose language competency.

cs.LG↗
arXiv2026

NeRF-MIR: Towards High-Quality Restoration of Masked Images with Neural Radiance Fields

Neural Radiance Fields (NeRF) have demonstrated remarkable performance in novel view synthesis. However, there is much improvement room on restoring 3D scenes based on NeRF from corrupted images, which are common in natural scene captures and can significantly impact the effectiveness of NeRF. This paper introduces NeRF-MIR, a novel neural rendering approach specifically proposed for the restoration of masked images, demonstrating the potential of NeRF in this domain. Recognizing that randomly emitting rays to pixels in NeRF may not effectively learn intricate image textures, we propose a \textbf{P}atch-based \textbf{E}ntropy for \textbf{R}ay \textbf{E}mitting (\textbf{PERE}) strategy to distribute emitted rays properly. This enables NeRF-MIR to fuse comprehensive information from images of different views. Additionally, we introduce a \textbf{P}rogressively \textbf{I}terative \textbf{RE}storation (\textbf{PIRE}) mechanism to restore the masked regions in a self-training process. Furthermore, we design a dynamically-weighted loss function that automatically recalibrates the loss weights for masked regions. As existing datasets do not support NeRF-based masked image restoration, we construct three masked datasets to simulate corrupted scenarios. Extensive experiments on real data and constructed datasets demonstrate the superiority of NeRF-MIR over its counterparts in masked image restoration.

cs.CV↗
arXiv2026

IDDR-NGP: Incorporating Detectors for Distractor Removal with Instant Neural Radiance Field

This paper presents the first unified distractor removal method, named IDDR-NGP, which directly operates on Instant-NPG. The method is able to remove a wide range of distractors in 3D scenes, such as snowflakes, confetti, defoliation and petals, whereas existing methods usually focus on a specific type of distractors. By incorporating implicit 3D representations with 2D detectors, we demonstrate that it is possible to efficiently restore 3D scenes from multiple corrupted images. We design the learned perceptual image patch similarity~( LPIPS) loss and the multi-view compensation loss (MVCL) to jointly optimize the rendering results of IDDR-NGP, which could aggregate information from multi-view corrupted images. All of them can be trained in an end-to-end manner to synthesize high-quality 3D scenes. To support the research on distractors removal in implicit 3D representations, we build a new benchmark dataset that consists of both synthetic and real-world distractors. To validate the effectiveness and robustness of IDDR-NGP, we provide a wide range of distractors with corresponding annotated labels added to both realistic and synthetic scenes. Extensive experimental results demonstrate the effectiveness and robustness of IDDR-NGP in removing multiple types of distractors. In addition, our approach achieves results comparable with the existing SOTA desnow methods and is capable of accurately removing both realistic and synthetic distractors.

cs.CV↗
arXiv2025

GloTok: Global Perspective Tokenizer for Image Reconstruction and Generation

Existing state-of-the-art image tokenization methods leverage diverse semantic features from pre-trained vision models for additional supervision, to expand the distribution of latent representations and thereby improve the quality of image reconstruction and generation. These methods employ a locally supervised approach for semantic supervision, which limits the uniformity of semantic distribution. However, VA-VAE proves that a more uniform feature distribution yields better generation performance. In this work, we introduce a Global Perspective Tokenizer (GloTok), which utilizes global relational information to model a more uniform semantic distribution of tokenized features. Specifically, a codebook-wise histogram relation learning method is proposed to transfer the semantics, which are modeled by pre-trained models on the entire dataset, to the semantic codebook. Then, we design a residual learning module that recovers the fine-grained details to minimize the reconstruction error caused by quantization. Through the above design, GloTok delivers more uniformly distributed semantic latent representations, which facilitates the training of autoregressive (AR) models for generating high-quality images without requiring direct access to pre-trained models during the training process. Experiments on the standard ImageNet-1k benchmark clearly show that our proposed method achieves state-of-the-art reconstruction performance and generation quality.

cs.CV↗
arXiv2025

scI2CL: Effectively Integrating Single-cell Multi-omics by Intra- and Inter-omics Contrastive Learning

Single-cell multi-omics data contain huge information of cellular states, and analyzing these data can reveal valuable insights into cellular heterogeneity, diseases, and biological processes. However, as cell differentiation \& development is a continuous and dynamic process, it remains challenging to computationally model and infer cell interaction patterns based on single-cell multi-omics data. This paper presents scI2CL, a new single-cell multi-omics fusion framework based on intra- and inter-omics contrastive learning, to learn comprehensive and discriminative cellular representations from complementary multi-omics data for various downstream tasks. Extensive experiments of four downstream tasks validate the effectiveness of scI2CL and its superiority over existing peers. Concretely, in cell clustering, scI2CL surpasses eight state-of-the-art methods on four widely-used real-world datasets. In cell subtyping, scI2CL effectively distinguishes three latent monocyte cell subpopulations, which are not discovered by existing methods. Simultaneously, scI2CL is the only method that correctly constructs the cell developmental trajectory from hematopoietic stem and progenitor cells to Memory B cells. In addition, scI2CL resolves the misclassification of cell types between two subpopulations of CD4+ T cells, while existing methods fail to precisely distinguish the mixed cells. In summary, scI2CL can accurately characterize cross-omics relationships among cells, thus effectively fuses multi-omics data and learns discriminative cellular representations to support various downstream analysis tasks.

q-bio.GN↗
arXiv2025

Predictable Scale: Part I, Step Law -- Optimal Hyperparameter Scaling Law in Large Language Model Pretraining

The impressive capabilities of Large Language Models (LLMs) across diverse tasks are now well established, yet their effective deployment necessitates careful hyperparameter optimization. Although existing methods have explored the influence of hyperparameters on model performance, a principled and generalizable framework across model architectures and data recipes remains absent. In this study, we conduct an unprecedented empirical investigation training over 3,700 LLMs from scratch across 100 trillion tokens, consuming nearly one million NVIDIA H800 GPU hours to establish a universal Scaling Law for hyperparameter optimization in LLM Pre-training, called Step Law. We empirically observe that, under fixed model size ($N$) and dataset size ($D$), the hyperparameter landscape exhibits convexity with a broad optimum, substantially reducing the complexity of hyperparameter search. Building on this insight, we formally define and empirically validate the Step Law: The optimal learning rate follows a power-law relationship with $N$ and $D$, while the optimal batch size is primarily influenced by $D$ and remains largely invariant to $N$.Notably, our estimated optima deviate from the global best performance found via exhaustive search by merely 0.094\% on the test set. To our best known, Step Law is the first that unifies different model shapes and structures, such as Mixture-of-Experts models and dense transformers, as well as establishes optimal hyperparameter scaling laws across diverse data recipes. We contribute a universal, plug-and-play optimal hyperparameter tool for the community, which is expected to advance efficient LLM training at scale. All experimental code, data and checkpoints are publicly available at https://github.com/step-law/steplaw

cs.LG↗
arXiv2025

OKG-LLM: Aligning Ocean Knowledge Graph with Observation Data via LLMs for Global Sea Surface Temperature Prediction

Sea surface temperature (SST) prediction is a critical task in ocean science, supporting various applications, such as weather forecasting, fisheries management, and storm tracking. While existing data-driven methods have demonstrated significant success, they often neglect to leverage the rich domain knowledge accumulated over the past decades, limiting further advancements in prediction accuracy. The recent emergence of large language models (LLMs) has highlighted the potential of integrating domain knowledge for downstream tasks. However, the application of LLMs to SST prediction remains underexplored, primarily due to the challenge of integrating ocean domain knowledge and numerical data. To address this issue, we propose Ocean Knowledge Graph-enhanced LLM (OKG-LLM), a novel framework for global SST prediction. To the best of our knowledge, this work presents the first systematic effort to construct an Ocean Knowledge Graph (OKG) specifically designed to represent diverse ocean knowledge for SST prediction. We then develop a graph embedding network to learn the comprehensive semantic and structural knowledge within the OKG, capturing both the unique characteristics of individual sea regions and the complex correlations between them. Finally, we align and fuse the learned knowledge with fine-grained numerical SST data and leverage a pre-trained LLM to model SST patterns for accurate prediction. Extensive experiments on the real-world dataset demonstrate that OKG-LLM consistently outperforms state-of-the-art methods, showcasing its effectiveness, robustness, and potential to advance SST prediction. The codes are available in the online repository.

cs.LG↗
arXiv2025

Predictable Scale: Part II, Farseer: A Refined Scaling Law in Large Language Models

Training Large Language Models (LLMs) is prohibitively expensive, creating a critical scaling gap where insights from small-scale experiments often fail to transfer to resource-intensive production systems, thereby hindering efficient innovation. To bridge this, we introduce Farseer, a novel and refined scaling law offering enhanced predictive accuracy across scales. By systematically constructing a model loss surface $L(N,D)$, Farseer achieves a significantly better fit to empirical data than prior laws (e.g., Chinchilla's law). Our methodology yields accurate, robust, and highly generalizable predictions, demonstrating excellent extrapolation capabilities, improving upon Chinchilla's law by reducing extrapolation error by 433\%. This allows for the reliable evaluation of competing training strategies across all $(N,D)$ settings, enabling conclusions from small-scale ablation studies to be confidently extrapolated to predict large-scale performance. Furthermore, Farseer provides new insights into optimal compute allocation, better reflecting the nuanced demands of modern LLM training. To validate our approach, we trained an extensive suite of approximately 1,000 LLMs across diverse scales and configurations, consuming roughly 3 million NVIDIA H100 GPU hours. We are comprehensively open-sourcing all models, data, results, and logs at https://github.com/Farseer-Scaling-Law/Farseer to foster further research.

cs.LG↗
arXiv2025

Fine-Grained Zero-Shot Object Detection

Zero-shot object detection (ZSD) aims to leverage semantic descriptions to localize and recognize objects of both seen and unseen classes. Existing ZSD works are mainly coarse-grained object detection, where the classes are visually quite different, thus are relatively easy to distinguish. However, in real life we often have to face fine-grained object detection scenarios, where the classes are too similar to be easily distinguished. For example, detecting different kinds of birds, fishes, and flowers. In this paper, we propose and solve a new problem called Fine-Grained Zero-Shot Object Detection (FG-ZSD for short), which aims to detect objects of different classes with minute differences in details under the ZSD paradigm. We develop an effective method called MSHC for the FG-ZSD task, which is based on an improved two-stage detector and employs a multi-level semantics-aware embedding alignment loss, ensuring tight coupling between the visual and semantic spaces. Considering that existing ZSD datasets are not suitable for the new FG-ZSD task, we build the first FG-ZSD benchmark dataset FGZSD-Birds, which contains 148,820 images falling into 36 orders, 140 families, 579 genera and 1432 species. Extensive experiments on FGZSD-Birds show that our method outperforms existing ZSD models.

cs.CV↗
arXiv2025

Fast Causal Discovery by Approximate Kernel-based Generalized Score Functions with Linear Computational Complexity

Score-based causal discovery methods can effectively identify causal relationships by evaluating candidate graphs and selecting the one with the highest score. One popular class of scores is kernel-based generalized score functions, which can adapt to a wide range of scenarios and work well in practice because they circumvent assumptions about causal mechanisms and data distributions. Despite these advantages, kernel-based generalized score functions pose serious computational challenges in time and space, with a time complexity of $\mathcal{O}(n^3)$ and a memory complexity of $\mathcal{O}(n^2)$, where $n$ is the sample size. In this paper, we propose an approximate kernel-based generalized score function with $\mathcal{O}(n)$ time and space complexities by using low-rank technique and designing a set of rules to handle the complex composite matrix operations required to calculate the score, as well as developing sampling algorithms for different data types to benefit the handling of diverse data types efficiently. Our extensive causal discovery experiments on both synthetic and real-world data demonstrate that compared to the state-of-the-art method, our method can not only significantly reduce computational costs, but also achieve comparable accuracy, especially for large datasets.

cs.LG↗
arXiv2025

Score-based Generative Modeling for Conditional Independence Testing

Determining conditional independence (CI) relationships between random variables is a fundamental yet challenging task in machine learning and statistics, especially in high-dimensional settings. Existing generative model-based CI testing methods, such as those utilizing generative adversarial networks (GANs), often struggle with undesirable modeling of conditional distributions and training instability, resulting in subpar performance. To address these issues, we propose a novel CI testing method via score-based generative modeling, which achieves precise Type I error control and strong testing power. Concretely, we first employ a sliced conditional score matching scheme to accurately estimate conditional score and use Langevin dynamics conditional sampling to generate null hypothesis samples, ensuring precise Type I error control. Then, we incorporate a goodness-of-fit stage into the method to verify generated samples and enhance interpretability in practice. We theoretically establish the error bound of conditional distributions modeled by score-based generative models and prove the validity of our CI tests. Extensive experiments on both synthetic and real-world datasets show that our method significantly outperforms existing state-of-the-art methods, providing a promising way to revitalize generative model-based CI testing.

cs.LG↗
arXiv2025

Imagination-Limited Q-Learning for Offline Reinforcement Learning

Offline reinforcement learning seeks to derive improved policies entirely from historical data but often struggles with over-optimistic value estimates for out-of-distribution (OOD) actions. This issue is typically mitigated via policy constraint or conservative value regularization methods. However, these approaches may impose overly constraints or biased value estimates, potentially limiting performance improvements. To balance exploitation and restriction, we propose an Imagination-Limited Q-learning (ILQ) method, which aims to maintain the optimism that OOD actions deserve within appropriate limits. Specifically, we utilize the dynamics model to imagine OOD action-values, and then clip the imagined values with the maximum behavior values. Such design maintains reasonable evaluation of OOD actions to the furthest extent, while avoiding its over-optimism. Theoretically, we prove the convergence of the proposed ILQ under tabular Markov decision processes. Particularly, we demonstrate that the error bound between estimated values and optimality values of OOD state-actions possesses the same magnitude as that of in-distribution ones, thereby indicating that the bias in value estimates is effectively mitigated. Empirically, our method achieves state-of-the-art performance on a wide range of tasks in the D4RL benchmark.

cs.LG↗
arXiv2025

Generative Regression Based Watch Time Prediction for Short-Video Recommendation

Watch time prediction (WTP) has emerged as a pivotal task in short video recommendation systems, designed to quantify user engagement through continuous interaction modeling. Predicting users' watch times on videos often encounters fundamental challenges, including wide value ranges and imbalanced data distributions, which can lead to significant estimation bias when directly applying regression techniques. Recent studies have attempted to address these issues by converting the continuous watch time estimation into an ordinal regression task. While these methods demonstrate partial effectiveness, they exhibit notable limitations: (1) the discretization process frequently relies on bucket partitioning, inherently reducing prediction flexibility and accuracy and (2) the interdependencies among different partition intervals remain underutilized, missing opportunities for effective error correction. Inspired by language modeling paradigms, we propose a novel Generative Regression (GR) framework that reformulates WTP as a sequence generation task. Our approach employs \textit{structural discretization} to enable nearly lossless value reconstruction while maintaining prediction fidelity. Through carefully designed vocabulary construction and label encoding schemes, each watch time is bijectively mapped to a token sequence. To mitigate the training-inference discrepancy caused by teacher-forcing, we introduce a \textit{curriculum learning with embedding mixup} strategy that gradually transitions from guided to free-generation modes. We evaluate our method against state-of-the-art approaches on two public datasets and one industrial dataset. We also perform online A/B testing on the Kuaishou App to confirm the real-world effectiveness. The results conclusively show that GR outperforms existing techniques significantly.

cs.LG↗
arXiv2025

Data Synthesis with Diverse Styles for Face Recognition via 3DMM-Guided Diffusion

Identity-preserving face synthesis aims to generate synthetic face images of virtual subjects that can substitute real-world data for training face recognition models. While prior arts strive to create images with consistent identities and diverse styles, they face a trade-off between them. Identifying their limitation of treating style variation as subject-agnostic and observing that real-world persons actually have distinct, subject-specific styles, this paper introduces MorphFace, a diffusion-based face generator. The generator learns fine-grained facial styles, e.g., shape, pose and expression, from the renderings of a 3D morphable model (3DMM). It also learns identities from an off-the-shelf recognition model. To create virtual faces, the generator is conditioned on novel identities of unlabeled synthetic faces, and novel styles that are statistically sampled from a real-world prior distribution. The sampling especially accounts for both intra-subject variation and subject distinctiveness. A context blending strategy is employed to enhance the generator's responsiveness to identity and style conditions. Extensive experiments show that MorphFace outperforms the best prior arts in face recognition efficacy.

cs.CV↗
arXiv2025

Effective Cloud Removal for Remote Sensing Images by an Improved Mean-Reverting Denoising Model with Elucidated Design Space

Cloud removal (CR) remains a challenging task in remote sensing image processing. Although diffusion models (DM) exhibit strong generative capabilities, their direct applications to CR are suboptimal, as they generate cloudless images from random noise, ignoring inherent information in cloudy inputs. To overcome this drawback, we develop a new CR model EMRDM based on mean-reverting diffusion models (MRDMs) to establish a direct diffusion process between cloudy and cloudless images. Compared to current MRDMs, EMRDM offers a modular framework with updatable modules and an elucidated design space, based on a reformulated forward process and a new ordinary differential equation (ODE)-based backward process. Leveraging our framework, we redesign key MRDM modules to boost CR performance, including restructuring the denoiser via a preconditioning technique, reorganizing the training process, and improving the sampling process by introducing deterministic and stochastic samplers. To achieve multi-temporal CR, we further develop a denoising network for simultaneously denoising sequential images. Experiments on mono-temporal and multi-temporal datasets demonstrate the superior performance of EMRDM. Our code is available at https://github.com/Ly403/EMRDM.

cs.CV↗
arXiv2025

M$^{3}$-20M: A Large-Scale Multi-Modal Molecule Dataset for AI-driven Drug Design and Discovery

This paper introduces M$^{3}$-20M, a large-scale Multi-Modal Molecule dataset that contains over 20 million molecules, with the data mainly being integrated from existing databases and partially generated by large language models. Designed to support AI-driven drug design and discovery, M$^{3}$-20M is 71 times more in the number of molecules than the largest existing dataset, providing an unprecedented scale that can highly benefit the training or fine-tuning of models, including large language models for drug design and discovery tasks. This dataset integrates one-dimensional SMILES, two-dimensional molecular graphs, three-dimensional molecular structures, physicochemical properties, and textual descriptions collected through web crawling and generated using GPT-3.5, offering a comprehensive view of each molecule. To demonstrate the power of M$^{3}$-20M in drug design and discovery, we conduct extensive experiments on two key tasks: molecule generation and molecular property prediction, using large language models including GLM4, GPT-3.5, GPT-4, and Llama3-8b. Our experimental results show that M$^{3}$-20M can significantly boost model performance in both tasks. Specifically, it enables the models to generate more diverse and valid molecular structures and achieve higher property prediction accuracy than existing single-modal datasets, which validates the value and potential of M$^{3}$-20M in supporting AI-driven drug design and discovery. The dataset is available at https://github.com/bz99bz/M-3.

q-bio.QM↗