seqlm: an MDL based method for identifying differentially methylated regions in high density methylation array data. - Raivo Kolde; Kaspar Märtens; Kaie Lokk; Sven Laur; Jaak Vilo (Bioinform., 2016)

Covariate Gaussian Process Latent Variable Models. - Kaspar Märtens; Kieran R. Campbell; Christopher Yau (CoRR, 2018)

Augmented Ensemble MCMC sampling in Factorial Hidden Markov Models. - Kaspar Märtens; Michalis K. Titsias; Christopher Yau (AISTATS, 2019)

Decomposing feature-level variation with Covariate Gaussian Process Latent Variable Models. - Kaspar Märtens; Kieran R. Campbell; Christopher Yau (ICML, 2019)

Neural Decomposition: Functional ANOVA with Variational Autoencoders. - Kaspar Märtens; Christopher Yau (AISTATS, 2020)

BasisVAE: Translation-invariant feature-level clustering with Variational Autoencoders. - Kaspar Märtens; Christopher Yau (AISTATS, 2020)

Disentangling shared and private latent factors in multimodal Variational Autoencoders. - Kaspar Märtens; Christopher Yau (MLCB, 2023)

Deep Stochastic Processes via Functional Markov Transition Operators. - Jin Xu 011; Emilien Dupont; Kaspar Märtens; Thomas Rainforth; Yee Whye Teh (NeurIPS, 2023)

Rarity: discovering rare cell populations from single-cell imaging data. - Kaspar Märtens; Michele Bortolomeazzi; Lucia Montorsi; Jo Spencer; Francesca D. Ciccarelli; Christopher Yau (Bioinform., 2023)

Query, Don't Train: Privacy-Preserving Tabular Prediction from EHR Data via SQL Queries. - Josefa Lia Stoisser; Marc Boubnovski Martell; Kaspar Märtens; Lawrence Phillips; Stephen Michael Town; Rory M. Donovan-Maiye; Julien Fauqueur (CoRR, 2025)

Modeling Gene Expression Distributional Shifts for Unseen Genetic Perturbations. - Kalyan Ramakrishnan; Jonathan G. Hedley; Sisi Qu; Puneet K. Dokania; Philip H. S. Torr; Cesar A. Prada-Medina; Julien Fauqueur; Kaspar Märtens (CoRR, 2025)

Towards Agents That Know When They Don't Know: Uncertainty as a Control Signal for Structured Reasoning. - Josefa Lia Stoisser; Marc Boubnovski Martell; Lawrence Phillips; Gianluca Mazzoni; Lea Mørch Harder; Philip Torr 001; Jesper Ferkinghoff-Borg; Kaspar Märtens; Julien Fauqueur (CoRR, 2025)

SynthPert: Enhancing LLM Biological Reasoning via Synthetic Reasoning Traces for Cellular Perturbation Prediction. - Lawrence Phillips; Marc Boubnovski Martell; Aditya Misra; Josefa Lia Stoisser; Cesar A. Prada-Medina; Rory M. Donovan-Maiye; Kaspar Märtens (CoRR, 2025)