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Spatial Transcriptomics is a groundbreaking technology that integrates histology images with spatially resolved gene expression profiles. Among the various Spatial Transcriptomics techniques available, Visium has emerged as the most widely…

Computer Vision and Pattern Recognition · Computer Science 2025-09-05 Daniela Ruiz , Paula Cárdenas , Leonardo Manrique , Daniela Vega , Gabriel M. Mejia , Pablo Arbeláez

Correctly perceiving micro-expression is difficult since micro-expression is an involuntary, repressed, and subtle facial expression, and efficiently revealing the subtle movement changes and capturing the significant segments in a…

Computer Vision and Pattern Recognition · Computer Science 2020-10-20 Jiateng Liu , Wenming Zheng , Yuan Zong

Human and animal tissues consist of heterogeneous cell types that organize and interact in highly structured manners. Bulk and single-cell sequencing technologies remove cells from their original microenvironments, resulting in a loss of…

Quantitative Methods · Quantitative Biology 2022-02-08 Boxiang Liu , Yanjun Li , Liang Zhang

In dynamic Magnetic Resonance Imaging (MRI), k-space is typically undersampled due to limited scan time, resulting in aliasing artifacts in the image domain. Hence, dynamic MR reconstruction requires not only modeling spatial frequency…

Image and Video Processing · Electrical Eng. & Systems 2023-10-19 Jiazhen Pan , Suprosanna Shit , Özgün Turgut , Wenqi Huang , Hongwei Bran Li , Nil Stolt-Ansó , Thomas Küstner , Kerstin Hammernik , Daniel Rueckert

The advent of next-generation sequencing-based spatially resolved transcriptomics (SRT) techniques has reshaped genomic studies by enabling high-throughput gene expression profiling while preserving spatial and morphological context.…

Applications · Statistics 2025-02-20 Bencong Zhu , Alberto Cassese , Marina Vannucci , Michele Guindani , Qiwei Li

Understanding how cellular morphology, gene expression, and spatial context jointly shape tissue function is a central challenge in biology. Image-based spatial transcriptomics technologies now provide high-resolution measurements of cell…

Quantitative Methods · Quantitative Biology 2026-02-17 Zhenglun Kong , Mufan Qiu , John Boesen , Xiang Lin , Sukwon Yun , Tianlong Chen , Manolis Kellis , Marinka Zitnik

Correspondence-based statistical shape modeling (SSM) stands as a powerful technology for morphometric analysis in clinical research. SSM facilitates population-level characterization and quantification of anatomical shapes such as bones…

Computer Vision and Pattern Recognition · Computer Science 2024-05-17 Jadie Adams , Shireen Elhabian

Navigated 2D multi-slice dynamic Magnetic Resonance (MR) imaging enables high contrast 4D MR imaging during free breathing and provides in-vivo observations for treatment planning and guidance. Navigator slices are vital for retrospective…

Machine Learning · Statistics 2018-04-13 Lin Zhang , Neerav Karani , Christine Tanner , Ender Konukoglu

Quantitative characterization of cellular spatial organization is critical for understanding tumor progression and immune response. Recent advances in artificial intelligence (AI) enable large-scale segmentation and classification of nuclei…

Computer Vision has proven to be a powerful tool for analyzing Spatial Transcriptomics (ST) data. However, current models that predict spatially resolved gene expression from histopathology images suffer from significant limitations due to…

Computer Vision and Pattern Recognition · Computer Science 2025-09-03 Paula Cárdenas , Leonardo Manrique , Daniela Vega , Daniela Ruiz , Pablo Arbeláez

Spatial Transcriptomics enables mapping of gene expression within its native tissue context, but current platforms measure only a limited set of genes due to experimental constraints and excessive costs. To overcome this, computational…

Genomics · Quantitative Biology 2025-11-20 Amit Kumar , Maninder Kaur , Raghvendra Mall , Sukrit Gupta

Advances in spatial transcriptomics (ST) technologies enable systematic molecular characterization of tumor microenvironment, tumor gradients and gene regulatory networks. Cancer progression is known to vary along pathological gradients,…

Automatic segmentation of medical images based on multi-modality is an important topic for disease diagnosis. Although the convolutional neural network (CNN) has been proven to have excellent performance in image segmentation tasks, it is…

Computer Vision and Pattern Recognition · Computer Science 2022-04-27 Xuejian Li , Shiqiang Ma , Jijun Tang , Fei Guo

Histopathological analysis has been transformed by serial section-based methods, advancing beyond traditional 2D histology to enable volumetric and microstructural insights in oncology and inflammatory disease diagnostics. This review…

Tissues and Organs · Quantitative Biology 2025-08-05 Zhenfeng Zhuang , Min Cen , Lei Jiang , Qiong Peng , Yihuang Hu , Hong-Yu Zhou , Liansheng Wang

In recent years, there has been a rapid development of spatio-temporal prediction techniques in response to the increasing demands of traffic management and travel planning. While advanced end-to-end models have achieved notable success in…

Machine Learning · Computer Science 2023-11-09 Zhonghang Li , Lianghao Xia , Yong Xu , Chao Huang

Medical imaging segmentation is a highly active area of research, with deep learning-based methods achieving state-of-the-art results in several benchmarks. However, the lack of standardized tools for training, testing, and evaluating new…

Image and Video Processing · Electrical Eng. & Systems 2024-11-19 Adrian Celaya , Evan Lim , Rachel Glenn , Brayden Mi , Alex Balsells , Dawid Schellingerhout , Tucker Netherton , Caroline Chung , Beatrice Riviere , David Fuentes

Universal Neural Style Transfer (NST) methods are capable of performing style transfer of arbitrary styles in a style-agnostic manner via feature transforms in (almost) real-time. Even though their unimodal parametric style modeling…

Computer Vision and Pattern Recognition · Computer Science 2018-12-03 Paraskevas Pegios , Nikolaos Passalis , Anastasios Tefas

Structural accuracy of segmentation is important for finescale structures in biomedical images. We propose a novel TopologyAttention ConvLSTM Network (TACNet) for 3D image segmentation in order to achieve high structural accuracy for 3D…

Image and Video Processing · Electrical Eng. & Systems 2022-02-09 Jiaqi Yang , Xiaoling Hu , Chao Chen , Chialing Tsai

Recent advances in multi-modal algorithms have driven and been driven by the increasing availability of large image-text datasets, leading to significant strides in various fields, including computational pathology. However, in most…

Computer Vision and Pattern Recognition · Computer Science 2024-06-21 Jiawen Chen , Muqing Zhou , Wenrong Wu , Jinwei Zhang , Yun Li , Didong Li