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Digital pathology offers a groundbreaking opportunity to transform clinical practice in histopathological image analysis, yet faces a significant hurdle: the substantial file sizes of pathological Whole Slide Images (WSI). While current…

Recent advancements in digital pathology have led to the development of numerous foundational models that utilize self-supervised learning on patches extracted from gigapixel whole slide images (WSIs). While this approach leverages vast…

Machine Learning · Computer Science 2024-08-23 Juseung Yun , Yi Hu , Jinhyung Kim , Jongseong Jang , Soonyoung Lee

While pathology foundation models have transformed cancer image analysis, they often lack integration with molecular data at single-cell resolution, limiting their utility for precision oncology. Here, we present PAST, a pan-cancer…

Quantitative Methods · Quantitative Biology 2025-07-10 Changchun Yang , Haoyang Li , Yushuai Wu , Yilan Zhang , Yifeng Jiao , Yu Zhang , Rihan Huang , Yuan Cheng , Yuan Qi , Xin Guo , Xin Gao

[Purpose] The pathology is decisive for disease diagnosis, but relies heavily on the experienced pathologists. Recently, pathological artificial intelligence (PAI) is thought to improve diagnostic accuracy and efficiency. However, the high…

Image and Video Processing · Electrical Eng. & Systems 2022-05-25 Yuanqing Yang , Kai Sun , Yanhua Gao , Kuangsong Wang , Gang Yu

Classification of gigapixel Whole Slide Images (WSIs) is an important prediction task in the emerging area of computational pathology. There has been a surge of research in deep learning models for WSI classification with clinical…

Computer Vision and Pattern Recognition · Computer Science 2023-05-04 Sajid Javed , Arif Mahmood , Talha Qaiser , Naoufel Werghi , Nasir Rajpoot

Standard of care diagnostic procedure for suspected skin cancer is microscopic examination of hematoxylin \& eosin stained tissue by a pathologist. Areas of high inter-pathologist discordance and rising biopsy rates necessitate higher…

While Vision-Language Models (VLMs) have achieved notable progress in computational pathology (CPath), the gigapixel scale and spatial heterogeneity of Whole Slide Images (WSIs) continue to pose challenges for multimodal understanding.…

Computer Vision and Pattern Recognition · Computer Science 2025-12-22 Fengchun Liu , Songhan Jiang , Linghan Cai , Ziyue Wang , Yongbing Zhang

Multiple Instance Learning (MIL) methods allow for gigapixel Whole-Slide Image (WSI) analysis with only slide-level annotations. Interpretability is crucial for safely deploying such algorithms in high-stakes medical domains. Traditional…

Computer Vision and Pattern Recognition · Computer Science 2025-01-07 Susu Sun , Leslie Tessier , Frédérique Meeuwsen , Clément Grisi , Dominique van Midden , Geert Litjens , Christian F. Baumgartner

Representation learning from Gigapixel Whole Slide Images (WSI) poses a significant challenge in computational pathology due to the complicated nature of tissue structures and the scarcity of labeled data. Multi-instance learning methods…

Image and Video Processing · Electrical Eng. & Systems 2024-05-28 Ali Nasiri-Sarvi , Vincent Quoc-Huy Trinh , Hassan Rivaz , Mahdi S. Hosseini

Computational methods on analyzing Whole Slide Images (WSIs) enable early diagnosis and treatments by supporting pathologists in detection and classification of tumors. However, the extremely high resolution of WSIs makes end-to-end…

Computer Vision and Pattern Recognition · Computer Science 2026-03-18 Umar Marikkar , Muhammad Awais , Sara Atito

With large volumes of health care data comes the research area of computational phenotyping, making use of techniques such as machine learning to describe illnesses and other clinical concepts from the data itself. The "traditional"…

Machine Learning · Statistics 2016-12-30 Chris Hodapp

Diagnostic, prognostic and therapeutic decision-making of cancer in pathology clinics can now be carried out based on analysis of multi-gigapixel tissue images, also known as whole-slide images (WSIs). Recently, deep convolutional neural…

Image and Video Processing · Electrical Eng. & Systems 2022-09-08 Quoc Dang Vu , Kashif Rajpoot , Shan E Ahmed Raza , Nasir Rajpoot

The histological assessment of human tissue has emerged as the key challenge for detection and treatment of cancer. A plethora of different data sources ranging from tissue microarray data to gene expression, proteomics or metabolomics data…

Computer Vision and Pattern Recognition · Computer Science 2016-01-05 Thomas J. Fuchs , Joachim M. Buhmann

Multiple instance learning (MIL) has emerged as a popular method for classifying histopathology whole slide images (WSIs). Existing approaches typically rely on frozen pre-trained models to extract instance features, neglecting the…

Computer Vision and Pattern Recognition · Computer Science 2024-03-20 Yi Lin , Zhengjie Zhu , Kwang-Ting Cheng , Hao Chen

The field of digital pathology has seen a proliferation of deep learning models in recent years. Despite substantial progress, it remains rare for other researchers and pathologists to be able to access models published in the literature…

Tissues and Organs · Quantitative Biology 2024-01-15 Jakub R. Kaczmarzyk , Alan O'Callaghan , Fiona Inglis , Tahsin Kurc , Rajarsi Gupta , Erich Bremer , Peter Bankhead , Joel H. Saltz

Prevention and early diagnosis of breast cancer (BC) is an essential prerequisite for the selection of proper treatment. The substantial pressure due to the increase of demand for faster and more precise diagnostic results drives for…

Image and Video Processing · Electrical Eng. & Systems 2021-06-29 Peter Bokor , Lukas Hudec , Ondrej Fabian , Wanda Benesova

Due to its superior efficiency in utilizing annotations and addressing gigapixel-sized images, multiple instance learning (MIL) has shown great promise as a framework for whole slide image (WSI) classification in digital pathology…

Quantitative Methods · Quantitative Biology 2023-07-14 Qiehe Sun , Jiawen Li , Jin Xu , Junru Cheng , Tian Guan , Yonghong He

Computational pathology (CPath) has shown great potential in mining actionable insights from Whole Slide Images (WSIs). Deep Learning (DL) has been at the center of modern CPath, and while it delivers unprecedented performance, it is also…

Quantitative Methods · Quantitative Biology 2025-07-31 Gianluca Carloni , Biagio Brattoli , Seongho Keum , Jongchan Park , Taebum Lee , Chang Ho Ahn , Sergio Pereira

Recent advances in artificial intelligence (AI), in particular self-supervised learning of foundation models (FMs), are revolutionizing medical imaging and computational pathology (CPath). A constant challenge in the analysis of digital…

Developing self-supervised learning (SSL) models that can learn universal and transferable representations of H&E gigapixel whole-slide images (WSIs) is becoming increasingly valuable in computational pathology. These models hold the…

Image and Video Processing · Electrical Eng. & Systems 2024-08-07 Guillaume Jaume , Anurag Vaidya , Andrew Zhang , Andrew H. Song , Richard J. Chen , Sharifa Sahai , Dandan Mo , Emilio Madrigal , Long Phi Le , Faisal Mahmood