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Single-cell foundation models such as scGPT learn high-dimensional gene representations, but what biological knowledge these representations encode remains unclear. We systematically decode the geometric structure of scGPT internal…

Genomics · Quantitative Biology 2026-02-27 Ihor Kendiukhov

Next-generation sequencing (NGS) technologies allow new methodologies for alternative splicing (AS) analysis. Current computational methods for AS from NGS data are mainly focused on predicting splice site junctions or de novo assembly of…

Genomics · Quantitative Biology 2012-08-15 Stefano Beretta , Paola Bonizzoni , Gianluca Della Vedova , Raffaella Rizzi

Spatial transcriptomics (ST) provides high-resolution pathological images and whole-transcriptomic expression profiles at individual spots across whole-slide scales. This setting makes it an ideal data source to develop multimodal…

Computer Vision and Pattern Recognition · Computer Science 2024-11-27 Yuxiang Lin , Ling Luo , Ying Chen , Xushi Zhang , Zihui Wang , Wenxian Yang , Mengsha Tong , Rongshan Yu

Spatial transcriptomics has revolutionized tissue analysis by simultaneously mapping gene expression, spatial topography, and histological context across consecutive tissue sections, enabling systematic investigation of spatial…

Applications · Statistics 2025-10-24 Meng Zhou , Shuangge Ma , Mengyun Wu

The task of generating natural images from 3D scenes has been a long standing goal in computer graphics. On the other hand, recent developments in deep neural networks allow for trainable models that can produce natural-looking images with…

Computer Vision and Pattern Recognition · Computer Science 2018-12-04 Hassan Abu Alhaija , Siva Karthik Mustikovela , Andreas Geiger , Carsten Rother

We address the problem of finding realistic geometric corrections to a foreground object such that it appears natural when composited into a background image. To achieve this, we propose a novel Generative Adversarial Network (GAN)…

Computer Vision and Pattern Recognition · Computer Science 2018-03-06 Chen-Hsuan Lin , Ersin Yumer , Oliver Wang , Eli Shechtman , Simon Lucey

Articulated objects are ubiquitous in daily environments, and their 3D reconstruction holds great significance across various fields. However, existing articulated object reconstruction methods typically require costly inputs such as…

Computer Vision and Pattern Recognition · Computer Science 2026-04-28 Di Wu , Liu Liu , Xueyu Yuan , Wenxiao Chen , Lijun Yue , Liuzhu Chen , Yiming Tang , Meng Wang

Semantic distillation in radiance fields has spurred significant advances in open-vocabulary robot policies, e.g., in manipulation and navigation, founded on pretrained semantics from large vision models. While prior work has demonstrated…

Computer Vision and Pattern Recognition · Computer Science 2025-10-06 Zhiting Mei , Ola Shorinwa , Anirudha Majumdar

Neural Radiance Fields (NeRF) have shown remarkable success in image novel view synthesis (NVS), inspiring extensions to LiDAR NVS. However, most methods heavily rely on accurate camera poses for scene reconstruction. The sparsity and…

Computer Vision and Pattern Recognition · Computer Science 2026-03-16 Yinuo Jiang , Jun Cheng , Yiran Wang , Cheng Cheng

Reconstructing static 3D scene from monocular video with dynamic objects is important for numerous applications such as virtual reality and autonomous driving. Current approaches typically rely on background for static scene reconstruction,…

Computer Vision and Pattern Recognition · Computer Science 2026-04-07 Yedong Shen , Shiqi Zhang , Sha Zhang , Yifan Duan , Xinran Zhang , Wenhao Yu , Lu Zhang , Jiajun Deng , Yanyong Zhang

Traffic flow prediction plays a crucial role in alleviating traffic congestion and enhancing transport efficiency. While combining graph convolution networks with recurrent neural networks for spatial-temporal modeling is a common strategy…

Machine Learning · Computer Science 2024-01-10 Haiyang Liu , Chunjiang Zhu , Detian Zhang

While Gaussian Splatting (GS) demonstrates efficient and high-quality scene rendering and small area surface extraction ability, it falls short in handling large-scale aerial image surface extraction tasks. To overcome this, we present…

Computer Vision and Pattern Recognition · Computer Science 2025-06-26 Zhuoxiao Li , Shanliang Yao , Taoyu Wu , Yong Yue , Wufan Zhao , Rongjun Qin , Angel F. Garcia-Fernandez , Andrew Levers , Xiaohui Zhu

Generating realistic hand motion sequences in interaction with objects has gained increasing attention with the growing interest in digital humans. Prior work has illustrated the effectiveness of employing occupancy-based or distance-based…

Computer Vision and Pattern Recognition · Computer Science 2024-05-14 Keyang Zhou , Bharat Lal Bhatnagar , Jan Eric Lenssen , Gerard Pons-moll

We consider molecule generation in 3D space using language models (LMs), which requires discrete tokenization of 3D molecular geometries. Although tokenization of molecular graphs exists, that for 3D geometries is largely unexplored. Here,…

Artificial Intelligence · Computer Science 2024-08-20 Xiner Li , Limei Wang , Youzhi Luo , Carl Edwards , Shurui Gui , Yuchao Lin , Heng Ji , Shuiwang Ji

The location, timing, and abundance of gene expression (both mRNA and proteins) within a tissue define the molecular mechanisms of cell functions. Recent technology breakthroughs in spatial molecular profiling, including imaging-based…

Applications · Statistics 2020-12-10 Qiwei Li , Minzhe Zhang , Yang Xie , Guanghua Xiao

Linear systems with large differences between coefficients ("discontinuous coefficients") arise in many cases in which partial differential equations(PDEs) model physical phenomena involving heterogeneous media. The standard approach to…

Mathematical Software · Computer Science 2009-05-04 Dan Gordon , Rachel Gordon

Over the past few years, a significant progress has been made in deep convolutional neural networks (CNNs)-based image recognition. This is mainly due to the strong ability of such networks in mining discriminative object pose and parts…

Computer Vision and Pattern Recognition · Computer Science 2022-10-05 Asish Bera , Zachary Wharton , Yonghuai Liu , Nik Bessis , Ardhendu Behera

Vision Transformer (ViT) has been widely used in computer vision tasks with excellent results by providing representations for a whole image or image patches. However, ViT lacks detailed localized image representations at arbitrary…

Computer Vision and Pattern Recognition · Computer Science 2026-04-22 Zeping Liu , Ni Lao , Zhangyu Wang , Junfeng Jiao , Gengchen Mai

3D-aware Generative Adversarial Networks (3D-GANs) currently exhibit artifacts in their 3D geometrical modeling, such as mesh imperfections and holes. These shortcomings are primarily attributed to the limited availability of annotated 3D…

Computer Vision and Pattern Recognition · Computer Science 2023-12-20 Jiarong Guo , Xiaogang Xu , Hengshuang Zhao

3D super-resolution (3DSR) aims to reconstruct high-resolution (HR) 3D scenes from low-resolution (LR) multi-view images. Existing methods rely on dense LR inputs and per-scene optimization, which restricts the high-frequency priors for…

Computer Vision and Pattern Recognition · Computer Science 2026-03-02 Xiang Feng , Xiangbo Wang , Tieshi Zhong , Chengkai Wang , Yiting Zhao , Tianxiang Xu , Zhenzhong Kuang , Feiwei Qin , Xuefei Yin , Yanming Zhu