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Determining early-stage prognostic markers and stratifying patients for effective treatment are two key challenges for improving outcomes for melanoma patients. Previous studies have used tumour transcriptome data to stratify patients into…

Image and Video Processing · Electrical Eng. & Systems 2022-02-24 Lucy Godson , Navid Alemi , Jeremie Nsengimana , Graham P. Cook , Emily L. Clarke , Darren Treanor , D. Timothy Bishop , Julia Newton-Bishop , Ali Gooya

Automated region of interest detection in histopathological image analysis is a challenging and important topic with tremendous potential impact on clinical practice. The deep-learning methods used in computational pathology help us to…

Computer Vision and Pattern Recognition · Computer Science 2022-11-01 Yi Cui , Yao Li , Jayson R. Miedema , Sherif Farag , J. S. Marron , Nancy E. Thomas

The spectacular response observed in clinical trials of immunotherapy in patients with previously uncurable Melanoma, a highly aggressive form of skin cancer, calls for a better understanding of the cancer-immune interface. Computational…

Computer Vision and Pattern Recognition · Computer Science 2018-08-08 Konstantinos Zormpas-Petridis , Henrik Failmezger , Ioannis Roxanis , Matthew Blackledge , Yann Jamin , Yinyin Yuan

Histological analysis of tissue samples is one of the most widely used methods for disease diagnosis. After taking a sample from a patient, it goes through a lengthy and laborious preparation, which stains the tissue to visualize different…

Computer Vision and Pattern Recognition · Computer Science 2019-03-05 Yair Rivenson , Hongda Wang , Zhensong Wei , Yibo Zhang , Harun Gunaydin , Aydogan Ozcan

Colorectal cancer (CRC) remains one of the leading causes of cancer-related morbidity and mortality worldwide, with gastrointestinal (GI) polyps serving as critical precursors according to the World Health Organization (WHO). Early and…

Computer Vision and Pattern Recognition · Computer Science 2026-01-15 Akwasi Asare , Thanh-Huy Nguyen , Ulas Bagci

Histological staining is a vital step used to diagnose various diseases and has been used for more than a century to provide contrast to tissue sections, rendering the tissue constituents visible for microscopic analysis by medical experts.…

Image and Video Processing · Electrical Eng. & Systems 2020-05-08 Yijie Zhang , Kevin de Haan , Yair Rivenson , Jingxi Li , Apostolos Delis , Aydogan Ozcan

Oral cancer incidence is rapidly increasing worldwide. The most important determinant factor in cancer survival is early diagnosis. To facilitate large scale screening, we propose a fully automated pipeline for oral cancer detection on…

Image and Video Processing · Electrical Eng. & Systems 2020-09-14 Jiahao Lu , Nataša Sladoje , Christina Runow Stark , Eva Darai Ramqvist , Jan-Michaél Hirsch , Joakim Lindblad

We present a method for a real time visualization and automatic processing for detection and classification of untouched cancer cells in blood during stain free imaging flow cytometry using digital holographic microscopy and machine…

Biological Physics · Physics 2021-06-15 Noga Nissim , Matan Dudaie , Itay Barnea. , Natan T. Shaked

Understanding the way cells communicate, co-locate, and interrelate is essential to understanding human physiology. Hematoxylin and eosin (H&E) staining is ubiquitously available both for clinical studies and research. The Colon Nucleus…

Microscopy enables direct observation of cellular morphology in 3D, with transmitted-light methods offering low-cost, minimally invasive imaging and fluorescence microscopy providing specificity and contrast. Virtual staining combines these…

Prostate cancer (PCa) is graded by pathologists by examining the architectural pattern of cancerous epithelial tissue on hematoxylin and eosin (H&E) stained slides. Given the importance of gland morphology, automatically differentiating…

Imaging mass spectrometry (IMS) is a powerful tool for untargeted, highly multiplexed molecular mapping of tissue in biomedical research. IMS offers a means of mapping the spatial distributions of molecular species in biological tissue with…

Computer Vision and Pattern Recognition · Computer Science 2025-08-05 Yijie Zhang , Luzhe Huang , Nir Pillar , Yuzhu Li , Lukasz G. Migas , Raf Van de Plas , Jeffrey M. Spraggins , Aydogan Ozcan

Quantitative phase imaging (QPI) has been widely applied in characterizing cells and tissues. Spatial light interference microscopy (SLIM) is a highly sensitive QPI method, due to its partially coherent illumination and common path…

Image and Video Processing · Electrical Eng. & Systems 2024-06-12 Yuheng Jiao , Yuchen R. He , Mikhail E. Kandel , Xiaojun Liu , Wenlong Lu , Gabriel Popescu

Using a deep neural network, we demonstrate a digital staining technique, which we term PhaseStain, to transform quantitative phase images (QPI) of labelfree tissue sections into images that are equivalent to brightfield microscopy images…

Image and Video Processing · Electrical Eng. & Systems 2019-02-08 Yair Rivenson , Tairan Liu , Zhensong Wei , Yibo Zhang , Aydogan Ozcan

Background and Purpose: Colorectal cancer is a common fatal malignancy, the fourth most common cancer in men, and the third most common cancer in women worldwide. Timely detection of cancer in its early stages is essential for treating the…

Histological examination is crucial for cancer diagnosis, including hematoxylin and eosin (H&E) staining for mapping morphology and immunohistochemistry (IHC) staining for revealing chemical information. Recently developed two-color…

Tissues and Organs · Quantitative Biology 2023-09-22 Hongli Ni , Chinmayee Prabhu Dessai , Haonan Lin , Wei Wang , Shaoxiong Chen , Yuhao Yuan , Xiaowei Ge , Jianpeng Ao , Nolan Vild , Ji-Xin Cheng

Timely and accurate lymphoma diagnosis is essential for guiding cancer treatment. Standard diagnostic practice combines hematoxylin and eosin (HE)-stained whole slide images with immunohistochemistry, flow cytometry, and molecular genetic…

Histological staining is the gold standard for tissue examination in clinical pathology and life-science research, which visualizes the tissue and cellular structures using chromatic dyes or fluorescence labels to aid the microscopic…

Medical Physics · Physics 2023-03-07 Bijie Bai , Xilin Yang , Yuzhu Li , Yijie Zhang , Nir Pillar , Aydogan Ozcan

Lensless imaging is a popular research field for the advantages of small size, wide field-of-view and low aberration in recent years. However, some traditional lensless imaging methods suffer from slow convergence, mechanical errors and…

Fine-grained classification of whole slide images (WSIs) is essential in precision oncology, enabling precise cancer diagnosis and personalized treatment strategies. The core of this task involves distinguishing subtle morphological…

Computer Vision and Pattern Recognition · Computer Science 2025-04-07 Cheng Jin , Luyang Luo , Huangjing Lin , Jun Hou , Hao Chen