Magnus Rattray

61 papers A* 1A 2C 2Journal 43Unranked 10

Year	Rank	Type	Title / Venue / Authors
2026	J	`jnl`	One-hot news: drug synergy models shortcut molecular features. Bioinform. Emine Beyza Çandir, Halil Ibrahim Kuru, Magnus Rattray, A. Ercüment Çiçek, Öznur Tastan
2025	J	`jnl`	Scalable Multi-Output Gaussian Processes with Stochastic Variational Inference. Trans. Mach. Learn. Res. Xiaoyu Jiang, Sokratia Georgaka, Magnus Rattray, Mauricio A. Álvarez
2024	J	`jnl`	GPMelt: A hierarchical Gaussian process framework to explore the dark meltome of thermal proteome profiling experiments. PLoS Comput. Biol. Cécile Le Sueur, Magnus Rattray, Mikhail Savitski
2024	J	`jnl`	Scalable Multi-Output Gaussian Processes with Stochastic Variational Inference. CoRR Xiaoyu Jiang, Sokratia Georgaka, Magnus Rattray, Mauricio A. Álvarez
2023	J	`jnl`	Modelling sequential branching dynamics with a multivariate branching Gaussian process. Trans. Mach. Learn. Res. Elvijs Sarkans, Sumon Ahmed, Magnus Rattray, Alexis Boukouvalas
2023	J	`jnl`	SynBa: improved estimation of drug combination synergies with uncertainty quantification. Bioinform. Haoting Zhang, Carl Henrik Ek, Magnus Rattray, Marta Milo
2022	J	`jnl`	Scalable inference of transcriptional kinetic parameters from MS2 time series data. Bioinform. Jonathan R. Bowles, Caroline Hoppe, Hilary L. Ashe, Magnus Rattray
2021	J	`jnl`	Non-parametric modelling of temporal and spatial counts data from RNA-seq experiments. Bioinform. Nuha Bintayyash, Sokratia Georgaka, S. T. John, Sumon Ahmed, Alexis Boukouvalas, James Hensman, Magnus Rattray
2020	J	`jnl`	HiChIP-Peaks: a HiChIP peak calling algorithm. Bioinform. Chenfu Shi, Magnus Rattray, Gisela Orozco
2020	J	`jnl`	OscoNet: inferring oscillatory gene networks. BMC Bioinform. Luisa Cutillo, Alexis Boukouvalas, Elli Marinopoulou, Nancy Papalopulu, Magnus Rattray
2019	J	`jnl`	GrandPrix: scaling up the Bayesian GPLVM for single-cell data. Bioinform. Sumon Ahmed, Magnus Rattray, Alexis Boukouvalas
2018	J	`jnl`	Trajectory inference and parameter estimation in stochastic models with temporally aggregated data. Stat. Comput. Maria Myrto Folia, Magnus Rattray
2017	J	`jnl`	BayesBinMix: an R Package for Model Based Clustering of Multivariate Binary Data. R J. Panagiotis Papastamoulis, Magnus Rattray
2017	J	`jnl`	Efficient inference for sparse latent variable models of transcriptional regulation. Bioinform. Zhenwen Dai, Mudassar Iqbal, Neil D. Lawrence, Magnus Rattray
2016	J	`jnl`	Detecting periodicities with Gaussian processes. PeerJ Comput. Sci. Nicolas Durrande, James Hensman, Magnus Rattray, Neil D. Lawrence
2016	J	`jnl`	Detecting periodicities with Gaussian processes. PeerJ Prepr. Nicolas Durrande, James Hensman, Magnus Rattray, Neil D. Lawrence
2016	J	`jnl`	Inferring the perturbation time from biological time course data. Bioinform. Jing Yang, Christopher A. Penfold, Murray R. Grant, Magnus Rattray
2015	J	`jnl`	Fast Nonparametric Clustering of Structured Time-Series. IEEE Trans. Pattern Anal. Mach. Intell. James Hensman, Magnus Rattray, Neil D. Lawrence
2015	J	`jnl`	Fast and accurate approximate inference of transcript expression from RNA-seq data. Bioinform. James Hensman, Panagiotis Papastamoulis, Peter Glaus, Antti Honkela, Magnus Rattray
2014	J	`jnl`	Fast variational inference for nonparametric clustering of structured time-series. CoRR James Hensman, Magnus Rattray, Neil D. Lawrence
2014	J	`jnl`	Inference of RNA Polymerase II Transcription Dynamics from Chromatin Immunoprecipitation Time Course Data. PLoS Comput. Biol. Ciira Wa Maina, Antti Honkela, Filomena Matarese, Korbinian Grote, Hendrik G. Stunnenberg, George Reid, Neil D. Lawrence, Magnus Rattray
2013	J	`jnl`	Hierarchical Bayesian modelling of gene expression time series across irregularly sampled replicates and clusters. BMC Bioinform. James Hensman, Neil D. Lawrence, Magnus Rattray
2013	J	`jnl`	puma 3.0: improved uncertainty propagation methods for gene and transcript expression analysis. BMC Bioinform. Xuejun Liu, Zhenzhu Gao, Li Zhang, Magnus Rattray
2012	J	`jnl`	Fast Variational Inference in the Conjugate Exponential Family CoRR James Hensman, Magnus Rattray, Neil D. Lawrence
2012	—	`conf`	Fast Variational Inference in the Conjugate Exponential Family. NIPS James Hensman, Magnus Rattray, Neil D. Lawrence
2012	J	`jnl`	Identifying differentially expressed transcripts from RNA-seq data with biological variation. Bioinform. Peter Glaus, Antti Honkela, Magnus Rattray
2012	J	`jnl`	Identifying targets of multiple co-regulating transcription factors from expression time-series by Bayesian model comparison. BMC Syst. Biol. Michalis K. Titsias, Antti Honkela, Neil D. Lawrence, Magnus Rattray
2011	J	`jnl`	tigre: Transcription factor inference through gaussian process reconstruction of expression for bioconductor. Bioinform. Antti Honkela, Pei Gao, Jonatan Ropponen, Magnus Rattray, Neil D. Lawrence
2010	—	`ch.`	A Brief Introduction to Bayesian Inference. Learning and Inference in Computational Systems Biology Neil D. Lawrence, Magnus Rattray
2010	A	`conf`	Dense Message Passing for Sparse Principal Component Analysis. AISTATS Kevin Sharp, Magnus Rattray
2010	—	`ch.`	Gaussian Processes for Missing Species in Biochemical Systems. Learning and Inference in Computational Systems Biology Neil D. Lawrence, Magnus Rattray, Pei Gao, Michalis K. Titsias
2010	—	`book`	Learning and Inference in Computational Systems Biology. Neil D. Lawrence, Mark A. Girolami, Magnus Rattray, Guido Sanguinetti
2010	J	`jnl`	Model-based method for transcription factor target identification with limited data. Proc. Natl. Acad. Sci. USA Antti Honkela, Charles Girardot, Eleanor Hilary Gustafson, Ya-Hsin Liu, Eileen E. M. Furlong, Neil D. Lawrence, Magnus Rattray
2010	J	`jnl`	TFInfer: a tool for probabilistic inference of transcription factor activities. Bioinform. Hafiz Muhammad Shahzad Asif, Matthew D. Rolfe, Jeffrey Green, Neil D. Lawrence, Magnus Rattray, Guido Sanguinetti
2009	J	`jnl`	puma: a Bioconductor package for propagating uncertainty in microarray analysis. BMC Bioinform. Richard D. Pearson, Xuejun Liu, Guido Sanguinetti, Marta Milo, Neil D. Lawrence, Magnus Rattray
2008	J	`jnl`	Bayesian inference of the sites of perturbations in metabolic pathways via Markov chain Monte Carlo. Bioinform. Bayu Jayawardhana, Douglas B. Kell, Magnus Rattray
2008	—	`conf`	Efficient Sampling for Gaussian Process Inference using Control Variables. NIPS Michalis K. Titsias, Neil D. Lawrence, Magnus Rattray
2008	C	`conf`	Gaussian process modelling of latent chemical species: applications to inferring transcription factor activities. ECCB Pei Gao, Antti Honkela, Magnus Rattray, Neil D. Lawrence
2007	J	`jnl`	A Methodology for Comparative Functional Genomics. J. Integr. Bioinform. 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
2007	—	`conf`	A probabilistic model for generating realistic lip movements from speech. NIPS Gwenn Englebienne, Timothy F. Cootes, Magnus Rattray
2007	J	`jnl`	Including probe-level uncertainty in model-based gene expression clustering. BMC Bioinform. Xuejun Liu, Kevin K. Lin, Bogi Andersen, Magnus Rattray
2006	J	`jnl`	A probabilistic dynamical model for quantitative inference of the regulatory mechanism of transcription. Bioinform. Guido Sanguinetti, Magnus Rattray, Neil D. Lawrence
2006	—	`conf`	Identifying Submodules of Cellular Regulatory Networks. CMSB Guido Sanguinetti, Magnus Rattray, Neil D. Lawrence
2006	—	`conf`	Modelling transcriptional regulation using Gaussian Processes. NIPS Neil D. Lawrence, Guido Sanguinetti, Magnus Rattray
2006	J	`jnl`	Probabilistic inference of transcription factor concentrations and gene-specific regulatory activities. Bioinform. Guido Sanguinetti, Neil D. Lawrence, Magnus Rattray
2006	J	`jnl`	Probe-level measurement error improves accuracy in detecting differential gene expression. Bioinform. Xuejun Liu, Marta Milo, Neil D. Lawrence, Magnus Rattray
2006	J	`jnl`	Propagating uncertainty in microarray data analysis. Briefings Bioinform. Magnus Rattray, Xuejun Liu, Guido Sanguinetti, Marta Milo, Neil D. Lawrence
2005	J	`jnl`	A tractable probabilistic model for Affymetrix probe-level analysis across multiple chips. Bioinform. Xuejun Liu, Marta Milo, Neil D. Lawrence, Magnus Rattray
2005	J	`jnl`	Accounting for probe-level noise in principal component analysis of microarray data. Bioinform. Guido Sanguinetti, Marta Milo, Magnus Rattray, Neil D. Lawrence
2004	A*	`conf`	A Statistical Mechanics Analysis of Gram Matrix Eigenvalue Spectra. COLT David C. Hoyle, Magnus Rattray
2003	—	`conf`	Limiting Form of the Sample Covariance Eigenspectrum in PCA and Kernel PCA. NIPS David C. Hoyle, Magnus Rattray
2003	J	`jnl`	Statistical Dynamics of On-line Independent Component Analysis. J. Mach. Learn. Res. Gleb Basalyga, Magnus Rattray
2002	C	`conf`	Dynamics of ICA for High-Dimensional Data. ICANN Gleb Basalyga, Magnus Rattray
2002	J	`jnl`	Making sense of microarray data distributions. Bioinform. David C. Hoyle, Magnus Rattray, Ray Jupp, Andy Brass
2002	J	`jnl`	Stochastic Trapping in a Solvable Model of On-Line Independent Component Analysis. Neural Comput. Magnus Rattray
2001	—	`conf`	Scaling Laws and Local Minima in Hebbian ICA. NIPS Magnus Rattray, Gleb Basalyga
2000	—	`conf`	A Model-Based Distance for Clustering. IJCNN (4) Magnus Rattray
1997	—	`conf`	Globally Optimal On-line Learning Rules. NIPS Magnus Rattray, David Saad
1996	A	`conf`	Noisy Fitness Evaluation in Genetic Algorithms and the Dynamics of Learning. FOGA Magnus Rattray, Jonathan Shapiro
1995	J	`jnl`	The Dynamics of a Genetic Algorithm under Stabilizing Selection. Complex Syst. Magnus Rattray
1994	—	`conf`	A Statistical Mechanical Formulation of the Dynamics of Genetic Algorithms. Evolutionary Computing, AISB Workshop Jonathan Shapiro, Adam Prügel-Bennett, Magnus Rattray