arXiv Machine Learning

PET/CT Radiogenomic Mutation Prediction in Non-Small Cell Lung Cancer Using Multi-Label Learning

arXiv:2608. 09721v1 Announce Type: new Abstract: Lung cancer remains one of the leading causes of cancer- related mortality worldwide.

arXiv Machine Learning
Jul 2

Foundation Models vs. Radiomics for Lung Computed Tomography: A Benchmark of Feature Extractors, Classification Heads, and Segmentation Choices

arXiv:2607. 01001v1 Announce Type: cross Abstract: Radiomics is the established approach for CT-based lung cancer phenotyping, yet comparisons with foundation models rarely isolate contributions of feature extractor, classification head, and segmentation choice, or test cross-cohort robustness.

By Nils Neukirch, Martin Maurer, Nils Strodthoff
arXiv Machine Learning
Jun 10

OncoTraj: a public benchmark for longitudinal resistance prediction in EGFR-mutant non-small-cell lung cancer on osimertinib

arXiv:2606. 11144v1 Announce Type: new Abstract: Resistance to first-line osimertinib in EGFR-mutant non-small-cell lung cancer (NSCLC) is the canonical example of predictable clonal evolution under therapeutic pressure, yet no public benchmark exists for training or evaluating computational models on the corresponding longitudinal patient trajectories.

By Abhijoy Sarkar, Aarchi Singh Thakur
arXiv Machine Learning
Aug 11

TRAPS: Treatment-Assignment Prediction via Pathway-informed Stratification

arXiv:2606. 09898v2 Announce Type: replace Abstract: Cancer treatment involves decisions across multiple clinical outcomes, yet pathway-informed deep learning models are typically evaluated in isolation, making their relative benefits unclear.

By Sujoy Banik, Sayantan Chakraborty, Boishakhi Das Toma, Zainab Ghafoor, Ushashi Bhattacharjee, Koushik Howlader, Tirtho Roy
arXiv AI
Jul 29

DeepVRegulome: DNABERT-based deep-learning framework for predicting the functional impact of short genomic variants on the human regulome

arXiv:2511. 09026v2 Announce Type: replace-cross Abstract: Whole-genome sequencing (WGS) has revealed numerous non-coding short variants whose functional impacts remain poorly understood.

By Pratik Dutta, Matthew Obusan, Rekha Sathian, Max Chao, Pallavi Surana, Nimisha Papineni, Yanrong Ji, Zhihan Zhou, Han Liu, Alisa Yurovsky, Ramana V Davuluri
Hugging Face Trending Papers
Jul 9

CT-CLIP Representations for Multimodal Lung Cancer Survival Prediction

Accurate prognosis prediction is important for treatment planning in lung cancer, but deep learning-driven survival modelling is often limited by the scarcity of curated imaging cohorts with reliable outcome data. This study evaluates whether representations from a domain-specific foundation model can be used for multimodal survival prediction in data-constrained clinical settings.

arXiv Computer Vision
Sep 7

Real-World Multi-Modal and Longitudinal Lung Cancer Dataset

The paper presents a newly curated, multi-center, multi-modal, and longitudinal lung cancer dataset comprising 1,365 patients with whole-slide images, CT scans, PET scans, structured clinical data, transcriptomics, and follow-up information. The dataset features substantial, non-uniform missingness across modalities, making it ideal for evaluating robust multi-modal fusion strategies. Benchmarks on 12‑month overall survival, disease‑specific survival, and longitudinal hazard prediction demonstrate that integrating complementary modalities consistently outperforms uni-modal approaches, even under severe missing data.

By Rita Cordeiro Mendes, Maria Rita Fonseca Verdelho, Carlos Santiago, Catarina Barata
arXiv Machine Learning
Aug 26

A Multimodal Foundation Model for Longitudinal Patient Representation and Scalable Insight Generation in Oncology

arXiv:2608.24688v1 Announce Type: new Abstract: Precision oncology necessitates a longitudinal model of patient state that captures cancer evolution and treatment over time, integrating multimodal ob...

By Eugene Vorontsov, Yi Kan Wang, Alican Bozkurt, Adam Casson, Ludmila Tydlitatova, Michal Zelechowski, Ezra E. W. Cohen, Jyoti D. Patel, Max Banaszak, Caitlin McWilliams, Shane Colley, Kate Sasser, Ryan Fukushima, Eric Lefkofsky, Razik Yousfi, Siqi Liu
arXiv AI
Jul 24

Foundation-model-guided radiogenomic discovery linking cancer genomes to cancer scans

arXiv:2607. 20583v1 Announce Type: cross Abstract: The function of many genes is still unknown, and conventional driver-discovery methods, which rely on how frequently a gene is mutated, cannot assess genes that are only rarely affected.

By Frederik Hauke, Jeremias Krause, Patrick Wienholt, Christiane Kuhl, Ingo Kurth, Sikander Hayat, Jakob Nikolas Kather, Sven Nebelung, Daniel Truhn