CYCLOPS provides an open-source platform for cyclic multiplex imaging and single-cell phenotyping using standard microscopy infrastructure, enabling reproducible and accessible spatial proteomics.

bioRxiv · Jun 14, 2026 · PreprintCell Biology

Morphospatial profiling of cancer-associated fibroblasts reveals architectural subtypes of pancreatic ductal adenocarcinoma

Adam S. Bryce, Silvia Martinelli, Leonor Schubert Santana, Leah Officer-Jones, Rachel L. Baird, Fiona Ballantyne, Kai Rakovic, Ian R. Powley, Dina Tataran, David J. Meltzer, Christopher Walsh, Fraser Duthie, Lucas Farndale, Adalberto Claudio Quiros, Ke Yuan, , David Kuang-Fu Chang

This study identifies architectural subtypes of PDAC using morphospatial profiling of CAFs, showing improved prognostication and chemotherapy response prediction.

bioRxiv · Feb 9, 2026 · PreprintCancer Biology

Self-Supervised AI Reveals a Hidden Landscape of Prognostic Spatial Patterns in Multiplex Immunofluorescence Images

Lucas Farndale, Kai Rakovic, Ian R. Powley, Phimmada Hatthakarnkul, Farzaneh Alsadat Seyedshahi, Sona Jesenakova, Leonor Patricia Schubert Santana, Silvia Martinelli, Fiona Ballantyne, Leah Officer-Jones, David Moore, Claire Wilson, Noori Maka, Campbell S.D. Roxburgh, Crispin J. Miller, , Marco Sereno

This paper introduces a self-supervised learning framework to analyze multiplex immunofluorescence images, revealing novel prognostic spatial patterns in cancer tissues.

bioRxiv · Oct 16, 2025 · PreprintCancer Biology