Xin Zeng

Jing Gong, Minsheng Hao, Xingyi Cheng et al.

Advances in high-throughput sequencing technology have led to significant progress in measuring gene expressions at the single-cell level. The amount of publicly available single-cell RNA-seq (scRNA-seq) data is already surpassing 50M records for humans with each record measuring 20,000 genes. This highlights the need for unsupervised representation learning to fully ingest these data, yet classical transformer architectures are prohibitive to train on such data in terms of both computation and memory. To address this challenge, we propose a novel asymmetric encoder-decoder transformer for scRNA-seq data, called xTrimoGene$^α$ (or xTrimoGene for short), which leverages the sparse characteristic of the data to scale up the pre-training. This scalable design of xTrimoGene reduces FLOPs by one to two orders of magnitude compared to classical transformers while maintaining high accuracy, enabling us to train the largest transformer models over the largest scRNA-seq dataset today. Our experiments also show that the performance of xTrimoGene improves as we scale up the model sizes, and it also leads to SOTA performance over various downstream tasks, such as cell type annotation, perturb-seq effect prediction, and drug combination prediction. xTrimoGene model is now available for use as a service via the following link: https://api.biomap.com/xTrimoGene/apply.

Bei Li, Quan Du, Tao Zhou et al.

Residual networks are an Euler discretization of solutions to Ordinary Differential Equations (ODE). This paper explores a deeper relationship between Transformer and numerical ODE methods. We first show that a residual block of layers in Transformer can be described as a higher-order solution to ODE. Inspired by this, we design a new architecture, {\it ODE Transformer}, which is analogous to the Runge-Kutta method that is well motivated in ODE. As a natural extension to Transformer, ODE Transformer is easy to implement and efficient to use. Experimental results on the large-scale machine translation, abstractive summarization, and grammar error correction tasks demonstrate the high genericity of ODE Transformer. It can gain large improvements in model performance over strong baselines (e.g., 30.77 and 44.11 BLEU scores on the WMT'14 English-German and English-French benchmarks) at a slight cost in inference efficiency.

Weichen Zhang, Peizhi Tang, Xin Zeng et al.

Unmanned aerial vehicles (UAVs) have emerged as powerful embodied agents. One of the core abilities is autonomous navigation in large-scale three-dimensional environments. Existing navigation policies, however, are typically optimized for low-level objectives such as obstacle avoidance and trajectory smoothness, lacking the ability to incorporate high-level semantics into planning. To bridge this gap, we propose ANWM, an aerial navigation world model that predicts future visual observations conditioned on past frames and actions, thereby enabling agents to rank candidate trajectories by their semantic plausibility and navigational utility. ANWM is trained on 4-DoF UAV trajectories and introduces a physics-inspired module: Future Frame Projection (FFP), which projects past frames into future viewpoints to provide coarse geometric priors. This module mitigates representational uncertainty in long-distance visual generation and captures the mapping between 3D trajectories and egocentric observations. Empirical results demonstrate that ANWM significantly outperforms existing world models in long-distance visual forecasting and improves UAV navigation success rates in large-scale environments.

Xin Zeng, Xiaoyu Wang, Tengxiang Zhang et al.

Existing gesture interfaces only work with a fixed set of gestures defined either by interface designers or by users themselves, which introduces learning or demonstration efforts that diminish their naturalness. Humans, on the other hand, understand free-form gestures by synthesizing the gesture, context, experience, and common sense. In this way, the user does not need to learn, demonstrate, or associate gestures. We introduce GestureGPT, a free-form hand gesture understanding framework that mimics human gesture understanding procedures to enable a natural free-form gestural interface. Our framework leverages multiple Large Language Model agents to manage and synthesize gesture and context information, then infers the interaction intent by associating the gesture with an interface function. More specifically, our triple-agent framework includes a Gesture Description Agent that automatically segments and formulates natural language descriptions of hand poses and movements based on hand landmark coordinates. The description is deciphered by a Gesture Inference Agent through self-reasoning and querying about the interaction context (e.g., interaction history, gaze data), which is managed by a Context Management Agent. Following iterative exchanges, the Gesture Inference Agent discerns the user's intent by grounding it to an interactive function. We validated our framework offline under two real-world scenarios: smart home control and online video streaming. The average zero-shot Top-1/Top-5 grounding accuracies are 44.79%/83.59% for smart home tasks and 37.50%/73.44% for video streaming tasks. We also provide an extensive discussion that includes rationale for model selection, generalizability, and future research directions for a practical system etc.

Weichen Zhang, Zile Zhou, Xin Zeng et al.

Spatial reasoning is a fundamental capability of multimodal large language models (MLLMs), yet their performance in open aerial environments remains underexplored. In this work, we present Open3D-VQA, a novel benchmark for evaluating MLLMs' ability to reason about complex spatial relationships from an aerial perspective. The benchmark comprises 73k QA pairs spanning 7 general spatial reasoning tasks, including multiple-choice, true/false, and short-answer formats, and supports both visual and point cloud modalities. The questions are automatically generated from spatial relations extracted from both real-world and simulated aerial scenes. Evaluation on 13 popular MLLMs reveals that: 1) Models are generally better at answering questions about relative spatial relations than absolute distances, 2) 3D LLMs fail to demonstrate significant advantages over 2D LLMs, and 3) Fine-tuning solely on the simulated dataset can significantly improve the model's spatial reasoning performance in real-world scenarios. We release our benchmark, data generation pipeline, and evaluation toolkit to support further research: https://github.com/EmbodiedCity/Open3D-VQA.code.

Bo Chen, Xingyi Cheng, Pan Li et al.

Protein language models have shown remarkable success in learning biological information from protein sequences. However, most existing models are limited by either autoencoding or autoregressive pre-training objectives, which makes them struggle to handle protein understanding and generation tasks concurrently. We propose a unified protein language model, xTrimoPGLM, to address these two types of tasks simultaneously through an innovative pre-training framework. Our key technical contribution is an exploration of the compatibility and the potential for joint optimization of the two types of objectives, which has led to a strategy for training xTrimoPGLM at an unprecedented scale of 100 billion parameters and 1 trillion training tokens. Our extensive experiments reveal that 1) xTrimoPGLM significantly outperforms other advanced baselines in 18 protein understanding benchmarks across four categories. The model also facilitates an atomic-resolution view of protein structures, leading to an advanced 3D structural prediction model that surpasses existing language model-based tools. 2) xTrimoPGLM not only can generate de novo protein sequences following the principles of natural ones, but also can perform programmable generation after supervised fine-tuning (SFT) on curated sequences. These results highlight the substantial capability and versatility of xTrimoPGLM in understanding and generating protein sequences, contributing to the evolving landscape of foundation models in protein science.

Weichen Zhang, Ruiying Peng, Chen Gao et al.

3D Large Language Models (LLMs) leveraging spatial information in point clouds for 3D spatial reasoning attract great attention. Despite some promising results, the role of point clouds in 3D spatial reasoning remains under-explored. In this work, we comprehensively evaluate and analyze these models to answer the research question: \textit{Does point cloud truly boost the spatial reasoning capacities of 3D LLMs?} We first evaluate the spatial reasoning capacity of LLMs with different input modalities by replacing the point cloud with the visual and text counterparts. We then propose a novel 3D QA (Question-answering) benchmark, ScanReQA, that comprehensively evaluates models' understanding of binary spatial relationships. Our findings reveal several critical insights: 1) LLMs without point input could even achieve competitive performance even in a zero-shot manner; 2) existing 3D LLMs struggle to comprehend the binary spatial relationships; 3) 3D LLMs exhibit limitations in exploiting the structural coordinates in point clouds for fine-grained spatial reasoning. We think these conclusions can help the next step of 3D LLMs and also offer insights for foundation models in other modalities. We release datasets and reproducible codes in the anonymous project page: https://3d-llm.xyz.

Yanrong Li, Tengxiang Zhang, Xin Zeng et al.

Recent advancements in augmented reality (AR) have enabled the use of various sensors on smart glasses for applications like facial reconstruction, which is vital to improve AR experiences for virtual social activities. However, the size and power constraints of smart glasses demand a miniature and low-power sensing solution. AUGlasses achieves unobtrusive low-power facial reconstruction by placing inertial measurement units (IMU) against the temporal area on the face to capture the skin deformations, which are caused by facial muscle movements. These IMU signals, along with historical data on facial action units (AUs), are processed by a transformer-based deep learning model to estimate AU intensities in real-time, which are then used for facial reconstruction. Our results show that AUGlasses accurately predicts the strength (0-5 scale) of 14 key AUs with a cross-user mean absolute error (MAE) of 0.187 (STD = 0.025) and achieves facial reconstruction with a cross-user MAE of 1.93 mm (STD = 0.353). We also integrated various preprocessing and training techniques to ensure robust performance for continuous sensing. Micro-benchmark tests indicate that our system consistently performs accurate continuous facial reconstruction with a fine-tuned cross-user model, achieving an AU MAE of 0.35.

Wanzhe Xu, Yutong Dai, Yitao Yang et al.

Accurate multivariate time-series prediction of vital signs and laboratory results is crucial for early intervention and precision medicine in intensive care units (ICUs). However, vital signs are often noisy and exhibit rapid fluctuations, while laboratory tests suffer from missing values, measurement lags, and device-specific bias, making integrative forecasting highly challenging. To address these issues, we propose OmniTFT, a deep learning framework that jointly learns and forecasts high-frequency vital signs and sparsely sampled laboratory results based on the Temporal Fusion Transformer (TFT). Specifically, OmniTFT implements four novel strategies to enhance performance: sliding window equalized sampling to balance physiological states, frequency-aware embedding shrinkage to stabilize rare-class representations, hierarchical variable selection to guide model attention toward informative feature clusters, and influence-aligned attention calibration to enhance robustness during abrupt physiological changes. By reducing the reliance on target-specific architectures and extensive feature engineering, OmniTFT enables unified modeling of multiple heterogeneous clinical targets while preserving cross-institutional generalizability. Across forecasting tasks, OmniTFT achieves substantial performance improvement for both vital signs and laboratory results on the MIMIC-III, MIMIC-IV, and eICU datasets. Its attention patterns are interpretable and consistent with known pathophysiology, underscoring its potential utility for quantitative decision support in clinical care.

Chen Xu, Yuhao Zhang, Chengbo Jiao et al.

While Transformer has become the de-facto standard for speech, modeling upon the fine-grained frame-level features remains an open challenge of capturing long-distance dependencies and distributing the attention weights. We propose \textit{Progressive Down-Sampling} (PDS) which gradually compresses the acoustic features into coarser-grained units containing more complete semantic information, like text-level representation. In addition, we develop a representation fusion method to alleviate information loss that occurs inevitably during high compression. In this way, we compress the acoustic features into 1/32 of the initial length while achieving better or comparable performances on the speech recognition task. And as a bonus, it yields inference speedups ranging from 1.20$\times$ to 1.47$\times$. By reducing the modeling burden, we also achieve competitive results when training on the more challenging speech translation task.

Bei Li, Quan Du, Tao Zhou et al.

It has been found that residual networks are an Euler discretization of solutions to Ordinary Differential Equations (ODEs). In this paper, we explore a deeper relationship between Transformer and numerical methods of ODEs. We show that a residual block of layers in Transformer can be described as a higher-order solution to ODEs. This leads us to design a new architecture (call it ODE Transformer) analogous to the Runge-Kutta method that is well motivated in ODEs. As a natural extension to Transformer, ODE Transformer is easy to implement and parameter efficient. Our experiments on three WMT tasks demonstrate the genericity of this model, and large improvements in performance over several strong baselines. It achieves 30.76 and 44.11 BLEU scores on the WMT'14 En-De and En-Fr test data. This sets a new state-of-the-art on the WMT'14 En-Fr task.

Dachuan Zhang, Haoyang Zhang, Zhisheng Wei et al.

The Internet contains a wealth of public opinion on food safety, including views on food adulteration, food-borne diseases, agricultural pollution, irregular food distribution, and food production issues. In order to systematically collect and analyse public opinion on food safety, we developed IFoodCloud, a platform for the real-time sentiment analysis of public opinion on food safety in China. It collects data from more than 3,100 public sources that can be used to explore public opinion trends, public sentiment, and regional attention differences of food safety incidents. At the same time, we constructed a sentiment classification model using multiple lexicon-based and deep learning-based algorithms integrated with IFoodCloud that provide an unprecedented rapid means of understanding the public sentiment toward specific food safety incidents. Our best model's F1-score achieved 0.9737. Further, three real-world cases are presented to demonstrate the application and robustness. IFoodCloud could be considered a valuable tool for promote scientisation of food safety supervision and risk communication.

Tairan Liu, Kevin de Haan, Yair Rivenson et al.

We present a deep learning framework based on a generative adversarial network (GAN) to perform super-resolution in coherent imaging systems. We demonstrate that this framework can enhance the resolution of both pixel size-limited and diffraction-limited coherent imaging systems. We experimentally validated the capabilities of this deep learning-based coherent imaging approach by super-resolving complex images acquired using a lensfree on-chip holographic microscope, the resolution of which was pixel size-limited. Using the same GAN-based approach, we also improved the resolution of a lens-based holographic imaging system that was limited in resolution by the numerical aperture of its objective lens. This deep learning-based super-resolution framework can be broadly applied to enhance the space-bandwidth product of coherent imaging systems using image data and convolutional neural networks, and provides a rapid, non-iterative method for solving inverse image reconstruction or enhancement problems in optics.