A Statistical Mechanical Formulation of the Dynamics of Genetic Algorithms. - Jonathan Shapiro; Adam Prügel-Bennett; Magnus Rattray (Evolutionary Computing, AISB Workshop, 1994)

The Dynamics of a Genetic Algorithm under Stabilizing Selection. - Magnus Rattray (Complex Syst., 1995)

Noisy Fitness Evaluation in Genetic Algorithms and the Dynamics of Learning. - Magnus Rattray; Jonathan Shapiro (FOGA, 1996)

Globally Optimal On-line Learning Rules. - Magnus Rattray; David Saad (NIPS, 1997)

A Model-Based Distance for Clustering. - Magnus Rattray (IJCNN (4), 2000)

Scaling Laws and Local Minima in Hebbian ICA. - Magnus Rattray; Gleb Basalyga (NIPS, 2001)

Dynamics of ICA for High-Dimensional Data. - Gleb Basalyga; Magnus Rattray (ICANN, 2002)

Making sense of microarray data distributions. - David C. Hoyle; Magnus Rattray; Ray Jupp; Andy Brass (Bioinform., 2002)

Stochastic Trapping in a Solvable Model of On-Line Independent Component Analysis. - Magnus Rattray (Neural Comput., 2002)

Limiting Form of the Sample Covariance Eigenspectrum in PCA and Kernel PCA. - David C. Hoyle; Magnus Rattray (NIPS, 2003)

Statistical Dynamics of On-line Independent Component Analysis. - Gleb Basalyga; Magnus Rattray (J. Mach. Learn. Res., 2003)

A Statistical Mechanics Analysis of Gram Matrix Eigenvalue Spectra. - David C. Hoyle; Magnus Rattray (COLT, 2004)

A tractable probabilistic model for Affymetrix probe-level analysis across multiple chips. - Xuejun Liu; Marta Milo; Neil D. Lawrence; Magnus Rattray (Bioinform., 2005)

Accounting for probe-level noise in principal component analysis of microarray data. - Guido Sanguinetti; Marta Milo; Magnus Rattray; Neil D. Lawrence (Bioinform., 2005)

Identifying Submodules of Cellular Regulatory Networks. - Guido Sanguinetti; Magnus Rattray; Neil D. Lawrence (CMSB, 2006)

Modelling transcriptional regulation using Gaussian Processes. - Neil D. Lawrence; Guido Sanguinetti; Magnus Rattray (NIPS, 2006)

Propagating uncertainty in microarray data analysis. - Magnus Rattray; Xuejun Liu; Guido Sanguinetti; Marta Milo; Neil D. Lawrence (Briefings Bioinform., 2006)

Probe-level measurement error improves accuracy in detecting differential gene expression. - Xuejun Liu; Marta Milo; Neil D. Lawrence; Magnus Rattray (Bioinform., 2006)

Probabilistic inference of transcription factor concentrations and gene-specific regulatory activities. - Guido Sanguinetti; Neil D. Lawrence; Magnus Rattray (Bioinform., 2006)

A probabilistic dynamical model for quantitative inference of the regulatory mechanism of transcription. - Guido Sanguinetti; Magnus Rattray; Neil D. Lawrence (Bioinform., 2006)

A probabilistic model for generating realistic lip movements from speech. - Gwenn Englebienne; Timothy F. Cootes; Magnus Rattray (NIPS, 2007)

Including probe-level uncertainty in model-based gene expression clustering. - Xuejun Liu; Kevin K. Lin; Bogi Andersen; Magnus Rattray (BMC Bioinform., 2007)

A Methodology for Comparative Functional Genomics. - Intikhab Alam; Mike Cornell; Darren M. Soanes; Cornelia Hedeler; Han Min Wong; Magnus Rattray; Simon J. Hubbard; Nicholas J. Talbot; Stephen G. Oliver; Norman W. Paton (J. Integr. Bioinform., 2007)

Gaussian process modelling of latent chemical species: applications to inferring transcription factor activities. - Pei Gao; Antti Honkela; Magnus Rattray; Neil D. Lawrence (ECCB, 2008)

Efficient Sampling for Gaussian Process Inference using Control Variables. - Michalis K. Titsias; Neil D. Lawrence; Magnus Rattray (NIPS, 2008)

Bayesian inference of the sites of perturbations in metabolic pathways via Markov chain Monte Carlo. - Bayu Jayawardhana; Douglas B. Kell; Magnus Rattray (Bioinform., 2008)

puma: a Bioconductor package for propagating uncertainty in microarray analysis. - Richard D. Pearson; Xuejun Liu; Guido Sanguinetti; Marta Milo; Neil D. Lawrence; Magnus Rattray (BMC Bioinform., 2009)

A Brief Introduction to Bayesian Inference. - Neil D. Lawrence; Magnus Rattray (Learning and Inference in Computational Systems Biology, 2010)

Gaussian Processes for Missing Species in Biochemical Systems. - Neil D. Lawrence; Magnus Rattray; Pei Gao; Michalis K. Titsias (Learning and Inference in Computational Systems Biology, 2010)

TFInfer: a tool for probabilistic inference of transcription factor activities. - Hafiz Muhammad Shahzad Asif; Matthew D. Rolfe; Jeffrey Green; Neil D. Lawrence; Magnus Rattray; Guido Sanguinetti (Bioinform., 2010)

Dense Message Passing for Sparse Principal Component Analysis. - Kevin Sharp; Magnus Rattray (AISTATS, 2010)

Model-based method for transcription factor target identification with limited data. - Antti Honkela; Charles Girardot; Eleanor Hilary Gustafson; Ya-Hsin Liu; Eileen E. M. Furlong; Neil D. Lawrence; Magnus Rattray (Proc. Natl. Acad. Sci. USA, 2010)

tigre: Transcription factor inference through gaussian process reconstruction of expression for bioconductor. - Antti Honkela; Pei Gao; Jonatan Ropponen; Magnus Rattray; Neil D. Lawrence (Bioinform., 2011)

Fast Variational Inference in the Conjugate Exponential Family. - James Hensman; Magnus Rattray; Neil D. Lawrence (NIPS, 2012)

Identifying differentially expressed transcripts from RNA-seq data with biological variation. - Peter Glaus; Antti Honkela; Magnus Rattray (Bioinform., 2012)

Identifying targets of multiple co-regulating transcription factors from expression time-series by Bayesian model comparison. - Michalis K. Titsias; Antti Honkela; Neil D. Lawrence; Magnus Rattray (BMC Syst. Biol., 2012)

Hierarchical Bayesian modelling of gene expression time series across irregularly sampled replicates and clusters. - James Hensman; Neil D. Lawrence; Magnus Rattray (BMC Bioinform., 2013)

puma 3.0: improved uncertainty propagation methods for gene and transcript expression analysis. - Xuejun Liu; Zhenzhu Gao; Li Zhang; Magnus Rattray (BMC Bioinform., 2013)

Fast variational inference for nonparametric clustering of structured time-series. - James Hensman; Magnus Rattray; Neil D. Lawrence (CoRR, 2014)

Inference of RNA Polymerase II Transcription Dynamics from Chromatin Immunoprecipitation Time Course Data. - Ciira Wa Maina; Antti Honkela; Filomena Matarese; Korbinian Grote; Hendrik G. Stunnenberg; George Reid; Neil D. Lawrence; Magnus Rattray (PLoS Comput. Biol., 2014)

Fast and accurate approximate inference of transcript expression from RNA-seq data. - James Hensman; Panagiotis Papastamoulis; Peter Glaus; Antti Honkela; Magnus Rattray (Bioinform., 2015)

Fast Nonparametric Clustering of Structured Time-Series. - James Hensman; Magnus Rattray; Neil D. Lawrence (IEEE Trans. Pattern Anal. Mach. Intell., 2015)

Inferring the perturbation time from biological time course data. - Jing Yang; Christopher A. Penfold; Murray R. Grant; Magnus Rattray (Bioinform., 2016)

Detecting periodicities with Gaussian processes. - Nicolas Durrande; James Hensman; Magnus Rattray; Neil D. Lawrence (PeerJ Prepr., 2016)

Efficient inference for sparse latent variable models of transcriptional regulation. - Zhenwen Dai; Mudassar Iqbal; Neil D. Lawrence; Magnus Rattray (Bioinform., 2017)

BayesBinMix: an R Package for Model Based Clustering of Multivariate Binary Data. - Panagiotis Papastamoulis; Magnus Rattray (R J., 2017)

Trajectory inference and parameter estimation in stochastic models with temporally aggregated data. - Maria Myrto Folia; Magnus Rattray (Stat. Comput., 2018)

GrandPrix: scaling up the Bayesian GPLVM for single-cell data. - Sumon Ahmed; Magnus Rattray; Alexis Boukouvalas (Bioinform., 2019)

HiChIP-Peaks: a HiChIP peak calling algorithm. - Chenfu Shi; Magnus Rattray; Gisela Orozco (Bioinform., 2020)

OscoNet: inferring oscillatory gene networks. - Luisa Cutillo; Alexis Boukouvalas; Elli Marinopoulou; Nancy Papalopulu; Magnus Rattray (BMC Bioinform., 2020)

Non-parametric modelling of temporal and spatial counts data from RNA-seq experiments. - Nuha Bintayyash; Sokratia Georgaka; S. T. John; Sumon Ahmed; Alexis Boukouvalas; James Hensman; Magnus Rattray (Bioinform., 2021)

Scalable inference of transcriptional kinetic parameters from MS2 time series data. - Jonathan R. Bowles; Caroline Hoppe; Hilary L. Ashe; Magnus Rattray (Bioinform., 2022)

SynBa: improved estimation of drug combination synergies with uncertainty quantification. - Haoting Zhang; Carl Henrik Ek; Magnus Rattray; Marta Milo (Bioinform., 2023)

Modelling sequential branching dynamics with a multivariate branching Gaussian process. - Elvijs Sarkans; Sumon Ahmed; Magnus Rattray; Alexis Boukouvalas (Trans. Mach. Learn. Res., 2023)

GPMelt: A hierarchical Gaussian process framework to explore the dark meltome of thermal proteome profiling experiments. - Cécile Le Sueur; Magnus Rattray; Mikhail Savitski (PLoS Comput. Biol., 2024)

Scalable Multi-Output Gaussian Processes with Stochastic Variational Inference. - Xiaoyu Jiang; Sokratia Georgaka; Magnus Rattray; Mauricio A. Álvarez (Trans. Mach. Learn. Res., 2025)