arXiv Machine Learning By Anders Sj\"oberg, Nils Olsson, Marcus Baaz, Mats Jirstrand

Multimodal Empirical Bayes Variational Autoencoders for Joint Longitudinal and Time-to-Event Modeling

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arXiv:2607. 13984v1 Announce Type: cross Abstract: Longitudinal tumor measurements, dropout information, and genetic covariates provide complementary information about treatment response, but integrating these data sources within a single population modeling framework remains challenging.

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arXiv Machine Learning
Aug 24

PerturbRx: Learning Treatment-Conditioned Latent Transitions for Patient Drug Response Prediction

PerturbRx is a treatment‑conditioned representation learning framework that learns latent transitions induced by drug interventions. It trains a drug‑ and dose‑conditioned transition predictor using control and treated single‑cell populations, then applies this predictor to pretreatment patient profiles to generate response features without needing post‑treatment data. On TCGA and patient‑derived xenograft benchmarks, PerturbRx outperforms other methods, demonstrating the value of perturbation‑pretrained latent transitions for patient‑level drug‑response prediction.

By Yoshitaka Inoue, Minoh Jeong, Alfred Hero, Rui Kuang, Augustin Luna
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 Machine Learning
Jul 7

Integrating Neural Encoders in Bayesian Generalized Linear Mixed Models for Multimodal Data

arXiv:2607. 04647v1 Announce Type: cross Abstract: Scalable Bayesian inference for generalized linear mixed models (GLMMs) provides uncertainty-aware analysis of correlated longitudinal data, but existing scalable approaches largely assume low-dimensional tabular predictors and do not directly accommodate high-dimensional modalities such as images and text.

By Yuankang Zhao, Youngsoo Baek, Felipe A. Medeiros, Samuel Berchuck, Matthew M. Engelhard