Gaussian process product models for nonparametric nonstationarity. - Ryan Prescott Adams; Oliver Stegle (ICML, 2008)

Accounting for Non-genetic Factors Improves the Power of eQTL Studies. - Oliver Stegle; Anitha Kannan; Richard Durbin; John M. Winn (RECOMB, 2008)

Gaussian Process Robust Regression for Noisy Heart Rate Data. - Oliver Stegle; Sebastian V. Fallert; David J. C. MacKay; Søren Brage (IEEE Trans. Biomed. Eng., 2008)

Discovering Temporal Patterns of Differential Gene Expression in Microarray Time Series. - Oliver Stegle; Katherine J. Denby; David L. Wild; Stuart McHattie; Andrew Meade; Zoubin Ghahramani; Karsten M. Borgwardt (GCB, 2009)

Relational Models for Generating Labeled Real-world Graphs. - Christoph Lippert; Nino Shervashidze; Oliver Stegle (MLG/SRL@ILP, 2009)

A Robust Bayesian Two-Sample Test for Detecting Intervals of Differential Gene Expression in Microarray Time Series. - Oliver Stegle; Katherine J. Denby; David L. Wild; Zoubin Ghahramani; Karsten M. Borgwardt (RECOMB, 2009)

Predicting and understanding the stability of G-quadruplexes. - Oliver Stegle; Linda Payet; Jean-Louis Mergny; David J. C. MacKay; Julian Leon Huppert (Bioinform., 2009)

A kernel method for unsupervised structured network inference. - Christoph Lippert; Oliver Stegle; Zoubin Ghahramani; Karsten M. Borgwardt (AISTATS, 2009)

Probabilistic latent variable models for distinguishing between cause and effect. - Joris M. Mooij; Oliver Stegle; Dominik Janzing; Kun Zhang 001; Bernhard Schölkopf (NIPS, 2010)

A Robust Bayesian Two-Sample Test for Detecting Intervals of Differential Gene Expression in Microarray Time Series. - Oliver Stegle; Katherine J. Denby; Emma J. Cooke; David L. Wild; Zoubin Ghahramani; Karsten M. Borgwardt (J. Comput. Biol., 2010)

A Bayesian Framework to Account for Complex Non-Genetic Factors in Gene Expression Levels Greatly Increases Power in eQTL Studies. - Oliver Stegle; Leopold Parts; Richard Durbin; John M. Winn (PLoS Comput. Biol., 2010)

Efficient inference in matrix-variate Gaussian models with iid observation noise. - Oliver Stegle; Christoph Lippert; Joris M. Mooij; Neil D. Lawrence; Karsten M. Borgwardt (NIPS, 2011)

Detecting low-complexity unobserved causes. - Dominik Janzing; Eleni Sgouritsa; Oliver Stegle; Jonas Peters; Bernhard Schölkopf (UAI, 2011)

Efficient branch-and-bound techniques for two-locus association mapping. - Karin Klotzbücher; Yasushi Kobayashi; Nino Shervashidze; Oliver Stegle; Bertram Müller-Myhsok; Detlef Weigel; Karsten M. Borgwardt (BMC Bioinform., 2011)

Session introduction. - Oliver Stegle; Frederick P. Roth; Quaid Morris; Jennifer Listgarten (Pacific Symposium on Biocomputing, 2012)

ShapePheno: unsupervised extraction of shape phenotypes from biological image collections. - Theofanis Karaletsos; Oliver Stegle; Christine Dreyer; John M. Winn; Karsten M. Borgwardt (Bioinform., 2012)

easyGWAS: An integrated interspecies platform for performing genome-wide association studies - Dominik G. Grimm; Bastian Greshake; Stefan Kleeberger; Christoph Lippert; Oliver Stegle; Bernhard Schölkopf; Detlef Weigel; Karsten M. Borgwardt (CoRR, 2012)

Joint Modelling of Confounding Factors and Prominent Genetic Regulators Provides Increased Accuracy in Genetical Genomics Studies. - Nicoló Fusi; Oliver Stegle; Neil D. Lawrence (PLoS Comput. Biol., 2012)

It is all in the noise: Efficient multi-task Gaussian process inference with structured residuals. - Barbara Rakitsch; Christoph Lippert; Karsten M. Borgwardt; Oliver Stegle (NIPS, 2013)

The Future of Genome-Based Medicine. - Quaid Morris; Steven E. Brenner; Jennifer Listgarten; Oliver Stegle (Pacific Symposium on Biocomputing, 2013)

Session introduction. - Oliver Stegle; Steven E. Brenner; Quaid Morris; Jennifer Listgarten (Pacific Symposium on Biocomputing, 2013)

Detecting regulatory gene-environment interactions with unmeasured environmental factors. - Nicoló Fusi; Christoph Lippert; Karsten M. Borgwardt; Neil D. Lawrence; Oliver Stegle (Bioinform., 2013)

A Lasso multi-marker mixed model for association mapping with population structure correction. - Barbara Rakitsch; Christoph Lippert; Oliver Stegle; Karsten M. Borgwardt (Bioinform., 2013)

Session introduction. - Jennifer Listgarten; Oliver Stegle; Quaid Morris; Steven E. Brenner; Leopold Parts (Pacific Symposium on Biocomputing, 2014)

Session introduction. - Joel T. Dudley; Jennifer Listgarten; Oliver Stegle; Steven E. Brenner; Leopold Parts (Pacific Symposium on Biocomputing, 2015)

Integrative Genome-wide Analysis of the Determinants of RNA Splicing in Kidney Renal Clear Cell Carcinoma. - Kjong-Van Lehmann; André Kahles; Cyriac Kandoth; William Lee; Nikolaus Schultz; Oliver Stegle; Gunnar Rätsch (Pacific Symposium on Biocomputing, 2015)

Warped Matrix Factorisation for Multi-view Data Integration. - Naruemon Pratanwanich; Pietro Liò; Oliver Stegle (ECML/PKDD (2), 2016)

GeneCodeq: quality score compression and improved genotyping using a Bayesian framework. - Daniel L. Greenfield; Oliver Stegle; Alban Rrustemi (Bioinform., 2016)

Open Targets: a platform for therapeutic target identification and validation. - Gautier Koscielny; Peter An; Denise Carvalho-Silva; Jennifer A. Cham; Luca Fumis; Rippa Gasparyan; Samiul Hasan; Nikiforos Karamanis; Michael Maguire; Eliseo Papa; Andrea Pierleoni; Miguel Pignatelli; et al. (Nucleic Acids Res., 2017)

Expression Atlas: gene and protein expression across multiple studies and organisms. - Irene Papatheodorou; Nuno A. Fonseca; Maria Keays; Y. Amy Tang; Elisabet Barrera; Wojciech Bazant; Melissa L. Burke; Anja Füllgrabe; Alfonso Muñoz-Pomer Fuentes; Nancy George; Laura Huerta; Satu Koskinen; et al. (Nucleic Acids Res., 2018)

12 Grand Challenges in Single-Cell Data Science. - David Laehnemann; Johannes Köster; Ewa Szczurek; Davis J. McCarthy; Stephanie C. Hicks; Mark D. Robinson; Catalina A. Vallejos; Niko Beerenwinkel; Kieran R. Campbell; Ahmed Mahfouz; Luca Pinello; Pavel Skums; et al. (PeerJ Prepr., 2019)

Genomic basis for RNA alterations in cancer. - Claudia Calabrese; Natalie R. Davidson; Deniz Demircioglu; Nuno A. Fonseca; Yao He; André Kahles; Kjong-Van Lehmann; Fenglin Liu; Yuichi Shiraishi; Cameron M. Soulette; Lara Urban; Liliana Greger; et al. (Nat., 2020)

FISHFactor: a probabilistic factor model for spatial transcriptomics data with subcellular resolution. - Florin C. Walter; Oliver Stegle; Britta Velten (Bioinform., 2023)

Bicycle: Intervention-Based Causal Discovery with Cycles. - Martin Rohbeck; Brian Clarke; Katharina Mikulik; Alexandra Pettet; Oliver Stegle; Kai Ueltzhöffer (CLeaR, 2024)