SIRAC: Supervised Identification of Regions of Aberration in aCGH datasets. - Carmen Lai; Hugo M. Horlings; Marc J. van de Vijver; Eric H. van Beers; Petra M. Nederlof; Lodewyk F. A. Wessels; Marcel J. T. Reinders (BMC Bioinform., 2007)

Automated Scoring of Nuclear Pleomorphism Spectrum with Pathologist-level Performance in Breast Cancer. - Caner Mercan; Maschenka Balkenhol; Roberto Salgado; Mark Sherman 003; Philippe Vielh; Willem Vreuls; António Polónia; Hugo M. Horlings; Wilko Weichert; Jodi M. Carter; Peter Bult; Matthias Christgen; et al. (CoRR, 2020)

Sparse-shot Learning with Exclusive Cross-Entropy for Extremely Many Localisations. - Andreas Panteli; Jonas Teuwen; Hugo M. Horlings; Efstratios Gavves (ICCV, 2021)

Sparse-Shot Learning for Extremely Many Localisations. - Andreas Panteli; Jonas Teuwen; Hugo M. Horlings; Efstratios Gavves (CoRR, 2021)

DeepSMILE: Self-supervised heterogeneity-aware multiple instance learning for DNA damage response defect classification directly from H&E whole-slide images. - Yoni Schirris; Efstratios Gavves; Iris Nederlof; Hugo Mark Horlings; Jonas Teuwen (CoRR, 2021)

Automated Dcis Identification From Multiplex Immunohistochemistry Using Generative Adversarial Networks. - Faranak Sobhani; Azam Hamidinekoo; Allison H. Hall; Lorraine M. King; Jeffrey R. Marks; Carlo C. Maley; Hugo M. Horlings; Eun-Sil Shelley Hwang; Yinyin Yuan (ISBI, 2022)

DCIS AI-TIL: Ductal Carcinoma In Situ Tumour Infiltrating Lymphocyte Scoring Using Artificial Intelligence. - Yeman Brhane Hagos; Faranak Sobhani; Simon P. Castillo; Allison H. Hall; Khalid AbdulJabbar; Roberto Salgado; Bryan Harmon; Kristalyn Gallagher; Mark Kilgore; Lorraine M. King; Jeffrey R. Marks; Carlo C. Maley; et al. (AIIIMA/MIABID@MICCAI, 2022)

WeakSTIL: weak whole-slide image level stromal tumor infiltrating lymphocyte scores are all you need. - Yoni Schirris; Mendel Engelaer; Andreas Panteli; Hugo Mark Horlings; Efstratios Gavves; Jonas Teuwen (Digital and Computational Pathology, 2022)

DeepSMILE: Contrastive self-supervised pre-training benefits MSI and HRD classification directly from H&E whole-slide images in colorectal and breast cancer. - Yoni Schirris; Efstratios Gavves; Iris Nederlof; Hugo Mark Horlings; Jonas Teuwen (Medical Image Anal., 2022)

PatchSorter: a high throughput deep learning digital pathology tool for object labeling. - Cedric Walker; Tasneem Talawalla; Robert Toth; Akhil Ambekar; Kien Rea; Oswin Chamian; Fan Fan; Sabina Berezowska; Sven Rottenberg; Anant Madabhushi; Marie Maillard; Laura Barisoni; et al. (npj Digit. Medicine, 2024)

H&E to IHC virtual staining methods in breast cancer: an overview and benchmarking. - Pascal Klöckner; José Teixeira; Diana Montezuma; João Fraga; Hugo M. Horlings; Jaime S. Cardoso 001; Sara Pires de Oliveira (npj Digit. Medicine, 2025)

ECTIL: Label-efficient Computational Tumour Infiltrating Lymphocyte (TIL) assessment in breast cancer: Multicentre validation in 2,340 patients with breast cancer. - Yoni Schirris; Rosie Voorthuis; Mark Opdam; Marte Liefaard; Gabe S. Sonke; Gwen Dackus; Vincent de Jong; Yuwei Wang; Annelot Van Rossum; Tessa G. Steenbruggen; Lars C. Steggink; Liesbeth G. E. de Vries; et al. (CoRR, 2025)

Training state-of-the-art pathology foundation models with orders of magnitude less data. - Mikhail Karasikov; Joost van Doorn; Nicolas Känzig; Melis Erdal Cesur; Hugo Mark Horlings; Robert B. West; Fei Tang; Sebastian Otálora (CoRR, 2025)

Foundation Models in Medical Imaging - A Review and Outlook. - Vivien van Veldhuizen; Vanessa Botha; Chunyao Lu; Melis Erdal Cesur; Kevin Groot Lipman; Edwin D. de Jong; Hugo M. Horlings; Clarisa I. Sánchez; Cees G. M. Snoek; Lodewyk F. A. Wessels; Ritse Mann; Eric Marcus; et al. (CoRR, 2025)

GANs vs. Diffusion Models for virtual staining with the HER2match dataset. - Pascal Klöckner; José Teixeira; Diana Montezuma; Jaime S. Cardoso 001; Hugo M. Horlings; Sara Pires de Oliveira (CoRR, 2025)