TwinWeaver: An LLM-Based Foundation Model Framework for Pan-Cancer Digital Twins

Read full text
Authors: Nikita Makarov, Maria Bordukova, Lena Voith von Voithenberg, Estrella Pivel-Villanueva, Sabrina J. Mielke, Jonathan Wickes, Hanchen Wang, Mingyu Derek Ma, Keunwoo Choi, Kyunghyun Cho, Stephen Ra, Raul Rodriguez-Esteban
+2 more Fabian Schmich, Michael P. Menden
Cited by: 2

Abstract

Precision oncology requires forecasting clinical events and trajectories, yet modeling sparse, multi-modal clinical time series remains a critical challenge. We introduce TwinWeaver, an open-source framework that serializes longitudinal patient histories into text, enabling unified event prediction as well as forecasting with large language models, and use it to build Genie Digital Twin (GDT) on 93,054 patients across 20 cancer types. In benchmarks, GDT significantly reduces forecasting error, achieving a median Mean Absolute Scaled Error (MASE) of 0.87 compared to 0.97 for the strongest time-series baseline (p

Fields of Study & Subjects

Machine Learning in Healthcare Artificial Intelligence in Healthcare and Education Radiomics and Machine Learning in Medical Imaging

Publication details

Journal / source
arXiv (Cornell University)
Publication date
28 January 2026
Document type
Preprint