Yuan Qi

Lei Chen, Xiaohui Zhong, Feng Zhang et al.

Over the past few years, due to the rapid development of machine learning (ML) models for weather forecasting, state-of-the-art ML models have shown superior performance compared to the European Centre for Medium-Range Weather Forecasts (ECMWF)'s high-resolution forecast (HRES) in 10-day forecasts at a spatial resolution of 0.25 degree. However, the challenge remains to perform comparably to the ECMWF ensemble mean (EM) in 15-day forecasts. Previous studies have demonstrated the importance of mitigating the accumulation of forecast errors for effective long-term forecasts. Despite numerous efforts to reduce accumulation errors, including autoregressive multi-time step loss, using a single model is found to be insufficient to achieve optimal performance in both short and long lead times. Therefore, we present FuXi, a cascaded ML weather forecasting system that provides 15-day global forecasts with a temporal resolution of 6 hours and a spatial resolution of 0.25 degree. FuXi is developed using 39 years of the ECMWF ERA5 reanalysis dataset. The performance evaluation, based on latitude-weighted root mean square error (RMSE) and anomaly correlation coefficient (ACC), demonstrates that FuXi has comparable forecast performance to ECMWF EM in 15-day forecasts, making FuXi the first ML-based weather forecasting system to accomplish this achievement.

Yaosen Chen, Qi Yuan, Zhiqiang Li et al.

3D scenes photorealistic stylization aims to generate photorealistic images from arbitrary novel views according to a given style image while ensuring consistency when rendering from different viewpoints. Some existing stylization methods with neural radiance fields can effectively predict stylized scenes by combining the features of the style image with multi-view images to train 3D scenes. However, these methods generate novel view images that contain objectionable artifacts. Besides, they cannot achieve universal photorealistic stylization for a 3D scene. Therefore, a styling image must retrain a 3D scene representation network based on a neural radiation field. We propose a novel 3D scene photorealistic style transfer framework to address these issues. It can realize photorealistic 3D scene style transfer with a 2D style image. We first pre-trained a 2D photorealistic style transfer network, which can meet the photorealistic style transfer between any given content image and style image. Then, we use voxel features to optimize a 3D scene and get the geometric representation of the scene. Finally, we jointly optimize a hyper network to realize the scene photorealistic style transfer of arbitrary style images. In the transfer stage, we use a pre-trained 2D photorealistic network to constrain the photorealistic style of different views and different style images in the 3D scene. The experimental results show that our method not only realizes the 3D photorealistic style transfer of arbitrary style images but also outperforms the existing methods in terms of visual quality and consistency. Project page:https://semchan.github.io/UPST_NeRF.

Xiaoyu Tan, Haoyu Wang, Xihe Qiu et al.

Structured data, rich in logical and relational information, has the potential to enhance the reasoning abilities of large language models (LLMs). Still, its integration poses a challenge due to the risk of overwhelming LLMs with excessive tokens and irrelevant context information. To address this, we propose Struct-X, a novel framework that operates through five key phases: ``read-model-fill-reflect-reason'' efficiently enabling LLMs to utilize structured data. It begins by encoding structured data into a topological space using graph embeddings, followed by filling in missing entity information with knowledge retrieval modules, and filtering out irrelevant tokens via a self-supervised module. The final phase involves constructing a topological network with selected tokens to further reduce the total token length for more effective LLM inference. Additionally, Struct-X includes an Auxiliary Module trained to generate prompts, aiding LLMs in analyzing structured data. Extensive experiments on benchmarks, including the knowledge graph question-answer task and the long document reading comprehension task, show that Struct-X notably improves LLM reasoning, demonstrating the effectiveness of structured data augmentation in improving LLM inference with complex input context.

Yukun Zhang, Guanzhong Chen, Zenglin Xu et al.

Cardiovascular diseases (CVDs) are currently the leading cause of death worldwide, highlighting the critical need for early diagnosis and treatment. Machine learning (ML) methods can help diagnose CVDs early, but their performance relies on access to substantial data with high quality. However, the sensitive nature of healthcare data often restricts individual clinical institutions from sharing data to train sufficiently generalized and unbiased ML models. Federated Learning (FL) is an emerging approach, which offers a promising solution by enabling collaborative model training across multiple participants without compromising the privacy of the individual data owners. However, to the best of our knowledge, there has been limited prior research applying FL to the cardiovascular disease domain. Moreover, existing FL benchmarks and datasets are typically simulated and may fall short of replicating the complexity of natural heterogeneity found in realistic datasets that challenges current FL algorithms. To address these gaps, this paper presents the first real-world FL benchmark for cardiovascular disease detection, named FedCVD. This benchmark comprises two major tasks: electrocardiogram (ECG) classification and echocardiogram (ECHO) segmentation, based on naturally scattered datasets constructed from the CVD data of seven institutions. Our extensive experiments on these datasets reveal that FL faces new challenges with real-world non-IID and long-tail data. The code and datasets of FedCVD are available https://github.com/SMILELab-FL/FedCVD.

Xin Pang, Zhucong Li, Jiaxiang Chen et al.

We introduce AI2Apps, a Visual Integrated Development Environment (Visual IDE) with full-cycle capabilities that accelerates developers to build deployable LLM-based AI agent Applications. This Visual IDE prioritizes both the Integrity of its development tools and the Visuality of its components, ensuring a smooth and efficient building experience.On one hand, AI2Apps integrates a comprehensive development toolkit ranging from a prototyping canvas and AI-assisted code editor to agent debugger, management system, and deployment tools all within a web-based graphical user interface. On the other hand, AI2Apps visualizes reusable front-end and back-end code as intuitive drag-and-drop components. Furthermore, a plugin system named AI2Apps Extension (AAE) is designed for Extensibility, showcasing how a new plugin with 20 components enables web agent to mimic human-like browsing behavior. Our case study demonstrates substantial efficiency improvements, with AI2Apps reducing token consumption and API calls when debugging a specific sophisticated multimodal agent by approximately 90% and 80%, respectively. The AI2Apps, including an online demo, open-source code, and a screencast video, is now publicly accessible.

Yichi Zhang, Bohao Lv, Le Xue et al.

Deep learning-based medical image segmentation typically requires large amount of labeled data for training, making it less applicable in clinical settings due to high annotation cost. Semi-supervised learning (SSL) has emerged as an appealing strategy due to its less dependence on acquiring abundant annotations from experts compared to fully supervised methods. Beyond existing model-centric advancements of SSL by designing novel regularization strategies, we anticipate a paradigmatic shift due to the emergence of promptable segmentation foundation models with universal segmentation capabilities using positional prompts represented by Segment Anything Model (SAM). In this paper, we present SemiSAM+, a foundation model-driven SSL framework to efficiently learn from limited labeled data for medical image segmentation. SemiSAM+ consists of one or multiple promptable foundation models as generalist models, and a trainable task-specific segmentation model as specialist model. For a given new segmentation task, the training is based on the specialist-generalist collaborative learning procedure, where the trainable specialist model delivers positional prompts to interact with the frozen generalist models to acquire pseudo-labels, and then the generalist model output provides the specialist model with informative and efficient supervision which benefits the automatic segmentation and prompt generation in turn. Extensive experiments on two public datasets and one in-house clinical dataset demonstrate that SemiSAM+ achieves significant performance improvement, especially under extremely limited annotation scenarios, and shows strong efficiency as a plug-and-play strategy that can be easily adapted to different specialist and generalist models.

Shiyi Qi, Zenglin Xu, Yiduo Li et al.

Recent advancements in deep learning have led to the development of various models for long-term multivariate time-series forecasting (LMTF), many of which have shown promising results. Generally, the focus has been on historical-value-based models, which rely on past observations to predict future series. Notably, a new trend has emerged with time-index-based models, offering a more nuanced understanding of the continuous dynamics underlying time series. Unlike these two types of models that aggregate the information of spatial domains or temporal domains, in this paper, we consider multivariate time series as spatiotemporal data regularly sampled from a continuous dynamical system, which can be represented by partial differential equations (PDEs), with the spatial domain being fixed. Building on this perspective, we present PDETime, a novel LMTF model inspired by the principles of Neural PDE solvers, following the encoding-integration-decoding operations. Our extensive experimentation across seven diverse real-world LMTF datasets reveals that PDETime not only adapts effectively to the intrinsic spatiotemporal nature of the data but also sets new benchmarks, achieving state-of-the-art results

Yifeng Jiao, Yuchen Liu, Yu Zhang et al.

The advent of single-cell Assay for Transposase-Accessible Chromatin using sequencing (scATAC-seq) offers an innovative perspective for deciphering regulatory mechanisms by assembling a vast repository of single-cell chromatin accessibility data. While foundation models have achieved significant success in single-cell transcriptomics, there is currently no foundation model for scATAC-seq that supports zero-shot high-quality cell identification and comprehensive multi-omics analysis simultaneously. Key challenges lie in the high dimensionality and sparsity of scATAC-seq data, as well as the lack of a standardized schema for representing open chromatin regions (OCRs). Here, we present ChromFound, a foundation model tailored for scATAC-seq. ChromFound utilizes a hybrid architecture and genome-aware tokenization to effectively capture genome-wide long contexts and regulatory signals from dynamic chromatin landscapes. Pretrained on 1.97 million cells from 30 tissues and 6 disease conditions, ChromFound demonstrates broad applicability across 6 diverse tasks. Notably, it achieves robust zero-shot performance in generating universal cell representations and exhibits excellent transferability in cell type annotation and cross-omics prediction. By uncovering enhancer-gene links undetected by existing computational methods, ChromFound offers a promising framework for understanding disease risk variants in the noncoding genome.

Zhaorui Tan, Xi Yang, Tan Pan et al.

Variations in medical imaging modalities and individual anatomical differences pose challenges to cross-modality generalization in multi-modal tasks. Existing methods often concentrate exclusively on common anatomical patterns, thereby neglecting individual differences and consequently limiting their generalization performance. This paper emphasizes the critical role of learning individual-level invariance, i.e., personalized representation $\mathbb{X}_h$, to enhance multi-modality generalization under both homogeneous and heterogeneous settings. It reveals that mappings from individual biological profile to different medical modalities remain static across the population, which is implied in the personalization process. We propose a two-stage approach: pre-training with invariant representation $\mathbb{X}_h$ for personalization, then fine-tuning for diverse downstream tasks. We provide both theoretical and empirical evidence demonstrating the feasibility and advantages of personalization, showing that our approach yields greater generalizability and transferability across diverse multi-modal medical tasks compared to methods lacking personalization. Extensive experiments further validate that our approach significantly enhances performance in various generalization scenarios.

Chao Qu, Hui Li, Chang Liu et al.

We propose a \emph{collaborative} multi-agent reinforcement learning algorithm named variational policy propagation (VPP) to learn a \emph{joint} policy through the interactions over agents. We prove that the joint policy is a Markov Random Field under some mild conditions, which in turn reduces the policy space effectively. We integrate the variational inference as special differentiable layers in policy such that the actions can be efficiently sampled from the Markov Random Field and the overall policy is differentiable. We evaluate our algorithm on several large scale challenging tasks and demonstrate that it outperforms previous state-of-the-arts.

Qi Yuan, Bingwang Zhang, Haojie Li et al.

Currently, most top-performing text detection networks tend to employ fixed-size anchor boxes to guide the search for text instances. They usually rely on a large amount of anchors with different scales to discover texts in scene images, thus leading to high computational cost. In this paper, we propose an end-to-end box-based text detector with scale-adaptive anchors, which can dynamically adjust the scales of anchors according to the sizes of underlying texts by introducing an additional scale regression layer. The proposed scale-adaptive anchors allow us to use a few number of anchors to handle multi-scale texts and therefore significantly improve the computational efficiency. Moreover, compared to discrete scales used in previous methods, the learned continuous scales are more reliable, especially for small texts detection. Additionally, we propose Anchor convolution to better exploit necessary feature information by dynamically adjusting the sizes of receptive fields according to the learned scales. Extensive experiments demonstrate that the proposed detector is fast, taking only $0.28$ second per image, while outperforming most state-of-the-art methods in accuracy.

Hao Peng, Shandian Zhe, Yuan Qi

Gaussian processes (GPs) are powerful non-parametric function estimators. However, their applications are largely limited by the expensive computational cost of the inference procedures. Existing stochastic or distributed synchronous variational inferences, although have alleviated this issue by scaling up GPs to millions of samples, are still far from satisfactory for real-world large applications, where the data sizes are often orders of magnitudes larger, say, billions. To solve this problem, we propose ADVGP, the first Asynchronous Distributed Variational Gaussian Process inference for regression, on the recent large-scale machine learning platform, PARAMETERSERVER. ADVGP uses a novel, flexible variational framework based on a weight space augmentation, and implements the highly efficient, asynchronous proximal gradient optimization. While maintaining comparable or better predictive performance, ADVGP greatly improves upon the efficiency of the existing variational methods. With ADVGP, we effortlessly scale up GP regression to a real-world application with billions of samples and demonstrate an excellent, superior prediction accuracy to the popular linear models.

Shandian Zhe, Kai Zhang, Pengyuan Wang et al.

Tensor factorization is a powerful tool to analyse multi-way data. Compared with traditional multi-linear methods, nonlinear tensor factorization models are capable of capturing more complex relationships in the data. However, they are computationally expensive and may suffer severe learning bias in case of extreme data sparsity. To overcome these limitations, in this paper we propose a distributed, flexible nonlinear tensor factorization model. Our model can effectively avoid the expensive computations and structural restrictions of the Kronecker-product in existing TGP formulations, allowing an arbitrary subset of tensorial entries to be selected to contribute to the training. At the same time, we derive a tractable and tight variational evidence lower bound (ELBO) that enables highly decoupled, parallel computations and high-quality inference. Based on the new bound, we develop a distributed inference algorithm in the MapReduce framework, which is key-value-free and can fully exploit the memory cache mechanism in fast MapReduce systems such as SPARK. Experimental results fully demonstrate the advantages of our method over several state-of-the-art approaches, in terms of both predictive performance and computational efficiency. Moreover, our approach shows a promising potential in the application of Click-Through-Rate (CTR) prediction for online advertising.

Hao Peng, Yuan Qi

Gaussian processes (GPs) provide a nonparametric representation of functions. However, classical GP inference suffers from high computational cost for big data. In this paper, we propose a new Bayesian approach, EigenGP, that learns both basis dictionary elements--eigenfunctions of a GP prior--and prior precisions in a sparse finite model. It is well known that, among all orthogonal basis functions, eigenfunctions can provide the most compact representation. Unlike other sparse Bayesian finite models where the basis function has a fixed form, our eigenfunctions live in a reproducing kernel Hilbert space as a finite linear combination of kernel functions. We learn the dictionary elements--eigenfunctions--and the prior precisions over these elements as well as all the other hyperparameters from data by maximizing the model marginal likelihood. We explore computational linear algebra to simplify the gradient computation significantly. Our experimental results demonstrate improved predictive performance of EigenGP over alternative sparse GP methods as well as relevance vector machine.

Shandian Zhe, Yuan Qi, Youngja Park et al.

Infinite Tucker Decomposition (InfTucker) and random function prior models, as nonparametric Bayesian models on infinite exchangeable arrays, are more powerful models than widely-used multilinear factorization methods including Tucker and PARAFAC decomposition, (partly) due to their capability of modeling nonlinear relationships between array elements. Despite their great predictive performance and sound theoretical foundations, they cannot handle massive data due to a prohibitively high training time. To overcome this limitation, we present Distributed Infinite Tucker (DINTUCKER), a large-scale nonlinear tensor decomposition algorithm on MAPREDUCE. While maintaining the predictive accuracy of InfTucker, it is scalable on massive data. DINTUCKER is based on a new hierarchical Bayesian model that enables local training of InfTucker on subarrays and information integration from all local training results. We use distributed stochastic gradient descent, coupled with variational inference, to train this model. We apply DINTUCKER to multidimensional arrays with billions of elements from applications in the "Read the Web" project (Carlson et al., 2010) and in information security and compare it with the state-of-the-art large-scale tensor decomposition method, GigaTensor. On both datasets, DINTUCKER achieves significantly higher prediction accuracy with less computational time.

Thomas P. Minka, Rongjing Xiang, Yuan et al.

In a typical online learning scenario, a learner is required to process a large data stream using a small memory buffer. Such a requirement is usually in conflict with a learner's primary pursuit of prediction accuracy. To address this dilemma, we introduce a novel Bayesian online classi cation algorithm, called the Virtual Vector Machine. The virtual vector machine allows you to smoothly trade-off prediction accuracy with memory size. The virtual vector machine summarizes the information contained in the preceding data stream by a Gaussian distribution over the classi cation weights plus a constant number of virtual data points. The virtual data points are designed to add extra non-Gaussian information about the classi cation weights. To maintain the constant number of virtual points, the virtual vector machine adds the current real data point into the virtual point set, merges two most similar virtual points into a new virtual point or deletes a virtual point that is far from the decision boundary. The information lost in this process is absorbed into the Gaussian distribution. The extra information provided by the virtual points leads to improved predictive accuracy over previous online classification algorithms.

Yuan Qi, Yandong Guo

Bayesian learning is often hampered by large computational expense. As a powerful generalization of popular belief propagation, expectation propagation (EP) efficiently approximates the exact Bayesian computation. Nevertheless, EP can be sensitive to outliers and suffer from divergence for difficult cases. To address this issue, we propose a new approximate inference approach, relaxed expectation propagation (REP). It relaxes the moment matching requirement of expectation propagation by adding a relaxation factor into the KL minimization. We penalize this relaxation with a $l_1$ penalty. As a result, when two distributions in the relaxed KL divergence are similar, the relaxation factor will be penalized to zero and, therefore, we obtain the original moment matching; In the presence of outliers, these two distributions are significantly different and the relaxation factor will be used to reduce the contribution of the outlier. Based on this penalized KL minimization, REP is robust to outliers and can greatly improve the posterior approximation quality over EP. To examine the effectiveness of REP, we apply it to Gaussian process classification, a task known to be suitable to EP. Our classification results on synthetic and UCI benchmark datasets demonstrate significant improvement of REP over EP and Power EP--in terms of algorithmic stability, estimation accuracy and predictive performance.

Yuan Qi, Bo Dai, Yao Zhu

Gaussian processes (GPs) provide a nonparametric representation of functions. However, classical GP inference suffers from high computational cost and it is difficult to design nonstationary GP priors in practice. In this paper, we propose a sparse Gaussian process model, EigenGP, based on the Karhunen-Loeve (KL) expansion of a GP prior. We use the Nystrom approximation to obtain data dependent eigenfunctions and select these eigenfunctions by evidence maximization. This selection reduces the number of eigenfunctions in our model and provides a nonstationary covariance function. To handle nonlinear likelihoods, we develop an efficient expectation propagation (EP) inference algorithm, and couple it with expectation maximization for eigenfunction selection. Because the eigenfunctions of a Gaussian kernel are associated with clusters of samples - including both the labeled and unlabeled - selecting relevant eigenfunctions enables EigenGP to conduct semi-supervised learning. Our experimental results demonstrate improved predictive performance of EigenGP over alternative state-of-the-art sparse GP and semisupervised learning methods for regression, classification, and semisupervised classification.