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Spatial Transcriptomics (ST) merges the benefits of pathology images and gene expression, linking molecular profiles with tissue structure to analyze spot-level function comprehensively. Predicting gene expression from histology images is a…

计算机视觉与模式识别 · 计算机科学 2025-12-01 Chen Zhang , Yilu An , Ying Chen , Hao Li , Xitong Ling , Lihao Liu , Junjun He , Yuxiang Lin , Zihui Wang , Rongshan Yu

Spatial Transcriptomics (ST) reveals the spatial distribution of gene expression in tissues, offering critical insights into biological processes and disease mechanisms. However, the high cost, limited coverage, and technical complexity of…

计算机视觉与模式识别 · 计算机科学 2025-04-22 Yi Niu , Jiashuai Liu , Yingkang Zhan , Jiangbo Shi , Di Zhang , Marika Reinius , Ines Machado , Mireia Crispin-Ortuzar , Jialun Wu , Chen Li , Zeyu Gao

The advancement of Spatial Transcriptomics (ST) has facilitated the spatially-aware profiling of gene expressions based on histopathology images. Although ST data offers valuable insights into the micro-environment of tumors, its…

计算机视觉与模式识别 · 计算机科学 2024-12-23 Hongyi Wang , Xiuju Du , Jing Liu , Shuyi Ouyang , Yen-Wei Chen , Lanfen Lin

Spatial transcriptomics (ST) reveals spatial heterogeneity of gene expression, yet its resolution is limited by current platforms. Recent methods enhance resolution via H&E-stained histology, but three major challenges persist: (1)…

图像与视频处理 · 电气工程与系统科学 2025-08-12 Xuepeng Liu , Zheng Jiang , Pinan Zhu , Hanyu Liu , Chao Li

Spatial transcriptomics (ST) enables the visualization of gene expression within the context of tissue morphology. This emerging discipline has the potential to serve as a foundation for developing tools to design precision medicines.…

图像与视频处理 · 电气工程与系统科学 2024-11-12 Shivam Kumar , Samrat Chatterjee

The rapid development of spatial transcriptomics (ST) offers new opportunities to explore the gene expression patterns within the spatial microenvironment. Current research integrates pathological images to infer gene expression, addressing…

Spatial transcriptomics (ST) is a groundbreaking genomic technology that enables spatial localization analysis of gene expression within tissue sections. However, it is significantly limited by high costs and sparse spatial resolution. An…

图像与视频处理 · 电气工程与系统科学 2024-07-31 Zhiceng Shi , Shuailin Xue , Fangfang Zhu , Wenwen Min

The advancement of Spatial Transcriptomics (ST) has facilitated the spatially-aware profiling of gene expressions based on histopathology images. Although ST data offers valuable insights into the micro-environment of tumors, its…

计算机视觉与模式识别 · 计算机科学 2024-01-25 Hongyi Wang , Xiuju Du , Jing Liu , Shuyi Ouyang , Yen-Wei Chen , Lanfen Lin

Spatial transcriptomics (ST) measures gene expression at fine-grained spatial resolution, offering insights into tissue molecular landscapes. Previous methods for spatial gene expression prediction typically crop spots of interest from…

计算机视觉与模式识别 · 计算机科学 2025-11-26 Ruikun Zhang , Yan Yang , Liyuan Pan

Spatial Transcriptomics (ST) provides spatially resolved gene expression profiles within intact tissue architecture, enabling molecular analysis in histological context. However, the high cost, limited throughput, and restricted data…

机器学习 · 计算机科学 2026-03-31 Yaoyu Fang , Jiahe Qian , Xinkun Wang , Lee A. Cooper , Bo Zhou

The rapid development of spatial transcriptomics(ST) enables the measurement of gene expression at spatial resolution, making it possible to simultaneously profile the gene expression, spatial locations of spots, and the matched…

人工智能 · 计算机科学 2024-06-19 Changxi Chi , Hang Shi , Qi Zhu , Daoqiang Zhang , Wei Shao

Spatial transcriptomics (ST) has revolutionized biomedical research by enabling high resolution gene expression profiling within tissues. However, the high cost and scarcity of high resolution ST data remain significant challenges. We…

计算机视觉与模式识别 · 计算机科学 2025-07-24 Yaoyu Fang , Jiahe Qian , Xinkun Wang , Lee A. Cooper , Bo Zhou

Spatial transcriptomics (ST) bridges gene expression and tissue morphology but faces clinical adoption barriers due to technical complexity and prohibitive costs. While computational methods predict gene expression from H&E-stained…

计算机视觉与模式识别 · 计算机科学 2025-11-20 Ziqiao Weng , Yaoyu Fang , Jiahe Qian , Xinkun Wang , Lee AD Cooper , Weidong Cai , Bo Zhou

Spatial transcriptomics (ST) provides crucial insights into tissue micro-environments, but is limited to its high cost and complexity. As an alternative, predicting gene expression from pathology whole slide images (WSI) is gaining…

计算机视觉与模式识别 · 计算机科学 2025-07-01 Mingcheng Qu , Yuncong Wu , Donglin Di , Yue Gao , Tonghua Su , Yang Song , Lei Fan

Spatial Transcriptomics (ST) allows a high-resolution measurement of RNA sequence abundance by systematically connecting cell morphology depicted in Hematoxylin and Eosin (H&E) stained histology images to spatially resolved gene…

计算机视觉与模式识别 · 计算机科学 2025-03-21 Sichen Zhu , Yuchen Zhu , Molei Tao , Peng Qiu

Spatial transcriptomics (ST) provides essential spatial context by mapping gene expression within tissue, enabling detailed study of cellular heterogeneity and tissue organization. However, aligning ST data with histology images poses…

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…

计算机视觉与模式识别 · 计算机科学 2024-11-27 Yuxiang Lin , Ling Luo , Ying Chen , Xushi Zhang , Zihui Wang , Wenxian Yang , Mengsha Tong , Rongshan Yu

Tumour heterogeneity in breast cancer poses challenges in predicting outcome and response to therapy. Spatial transcriptomics technologies may address these challenges, as they provide a wealth of information about gene expression at the…

图像与视频处理 · 电气工程与系统科学 2023-09-19 Md Mamunur Rahaman , Ewan K. A. Millar , Erik Meijering

Spatial transcriptomics (ST) technologies enable gene expression profiling with spatial resolution, offering unprecedented insights into tissue organization and disease heterogeneity. However, current analysis methods often struggle with…

Spatial transcriptomics offers spatially resolved gene expression profiling within tissue sections, but its cost and limited throughput hinder large-scale deployment. To extend this capability to routine practice, recent computational…

机器学习 · 计算机科学 2026-05-07 Keunho Byeon , Jin Tae Kwak
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