Simon Rogers

发表

Comparative Metabologenomics Analysis of Polar Actinomycetes

Katherine R. Duncan, Grimur Hjorleifsson Eldjarn, S. Rogers, 2021, Marine drugs.

Fast Parameter Inference in Nonlinear Dynamical Systems using Iterative Gradient Matching

Dirk Husmeier, Maurizio Filippone, Simon Rogers, 2016, ICML.

ODE parameter inference using adaptive gradient matching with Gaussian processes

Dirk Husmeier, Maurizio Filippone, Simon Rogers, 2013, AISTATS.

Estimating Dataset Size Requirements for Classifying DNA Microarray Data

Sayan Mukherjee, Jill P. Mesirov, Colin Campbell, 2003, J. Comput. Biol..

MolNetEnhancer: Enhanced Molecular Networks by Integrating Metabolome Mining and Annotation Tools

Joe Wandy, Simon Rogers, Mingxun Wang, 2019, bioRxiv.

Topic modeling for untargeted substructure exploration in metabolomics

Joe Wandy, Simon Rogers, Michael P Barrett, 2016, Proceedings of the National Academy of Sciences.

Investigating the correspondence between transcriptomic and proteomic expression profiles using coupled cluster models

Tao Liu, Simon Rogers, Mark A. Girolami, 2008, Bioinform..

Infinite factorization of multiple non-parametric views

Samuel Kaski, Simon Rogers, Mark A. Girolami, 2010, Machine Learning.

Advances in decomposing complex metabolite mixtures using substructure- and network-based computational metabolomics approaches

S. Rogers, J. V. D. van der Hooft, G. Genta‐Jouve, 2021, Natural product reports.

Predicting host taxonomic information from viral genomes: A comparison of feature representations

Simon Rogers, David L Robertson, Francesca Young, 2020, PLoS Comput. Biol..

Linking biosynthetic and chemical space to accelerate microbial secondary metabolite discovery

Simon Rogers, Katherine R. Duncan, Sylvia Soldatou, 2019, FEMS microbiology letters.

HDP-Align: Hierarchical Dirichlet Process Clustering for Multiple Peak Alignment of Liquid Chromatography Mass Spectrometry Data

Joe Wandy, Simon Rogers, Rónán Daly, 2016, bioRxiv.

Feature-Based Molecular Networking in the GNPS Analysis Environment

Simon Rogers, Nuno Bandeira, Mingxun Wang, 2019, Nature Methods.

Spec2Vec: Improved mass spectral similarity scoring through learning of structural relationships

Florian Huber, Lars Ridder, Stefan Verhoeven, 2020, bioRxiv.

Ms2lda.org: web-based topic modelling for substructure discovery in mass spectrometry

Joe Wandy, Simon Rogers, Michael P. Barrett, 2017, Bioinform..

Rapid Development of Improved Data-Dependent Acquisition Strategies

Vinny Davies, Joe Wandy, Stefan Weidt, 2020, bioRxiv.

Classification of Protein Interaction Sentences via Gaussian Processes

Simon Rogers, Mark A. Girolami, Tamara Polajnar, 2009, PRIB.

Alignment of multiple metabolomics LC-MS datasets from disparate diseases to reveal fever-associated metabolites

M. Barrett, S. Rogers, Washington B Cárdenas, 2021, bioRxiv.

Spec2Vec: Improved mass spectral similarity scoring through learning of structural relationships.

S. Rogers, J. V. D. van der Hooft, F. Diblen, 2021, PLoS computational biology.

matchms - processing and similarity evaluation of mass spectrometry data

Florian Huber, Stefan Verhoeven, Jurriaan H. Spaaks, 2020, bioRxiv.

Expression profiling targeting chromosomes for tumor classification and prediction of clinical behavior

Simon Rogers, Colin Campbell, Rubin Wang, 2003, Genes, chromosomes & cancer.

A community resource for paired genomic and metabolomic data mining

Elizabeth I. Parkinson, Emily C. Gentry, Allegra T. Aron, 2021, Nature Chemical Biology.

Ranking microbial metabolomic and genomic links in the NPLinker framework using complementary scoring functions

Juho Rousu, Justin J. J. van der Hooft, Simon Rogers, 2020, bioRxiv.

Unsupervised Discovery and Comparison of Structural Families Across Multiple Samples in Untargeted Metabolomics

Joe Wandy, Simon Rogers, Michael P. Barrett, 2017, Analytical chemistry.

Metabolite identification from liquid chromotography / MS data using a Bayesian modelling approach

R. Breitling, M. Stumpf, S. Rogers, 2013 .

Prognostic classification of relapsing favorable histology Wilms tumor using cDNA microarray expression profiling and support vector machines

Simon Rogers, Colin Campbell, Javed Khan, 2004, Genes, chromosomes & cancer.

Bayesian model-based inference of transcription factor activity

Raya Khanin, Simon Rogers, Mark A. Girolami, 2007, BMC Bioinformatics.

Ranking Metabolite Sets by Their Activity Levels

Isabel M. Vincent, S. Rogers, J. V. D. van der Hooft, 2021, Metabolites.

PiMP my metabolome: an integrated, web-based tool for LC-MS metabolomics data

Joe Wandy, Simon Rogers, Michael P. Barrett, 2017, Bioinform..

Variational Bayesian Multinomial Probit Regression with Gaussian Process Priors

Mark Girolami, Simon Rogers, M. Girolami, 2006, Neural Computation.

Identification of prognostic signatures in breast cancer microarray data using Bayesian techniques

M. Girolami, C. Cooper, L. Carrivick, 2006, Journal of The Royal Society Interface.

Towards development of a statistical framework to evaluate myotonic dystrophy type 1 mRNA biomarkers in the context of a clinical trial

T. Ashizawa, S. Rogers, J. McClure, 2019, bioRxiv.

Probabilistic framework for integration of mass spectrum and retention time information in small molecule identification

Juho Rousu, Simon Rogers, John Williamson, 2020, bioRxiv.

Statistical methods and models for bridging Omics data levels.

S. Rogers, Simon Rogers, 2011, Methods in molecular biology.

Simulated-to-real benchmarking of acquisition methods in untargeted metabolomics

K. Bryson, S. Rogers, J. V. D. van der Hooft, 2023, Frontiers in Molecular Biosciences.

A Bayesian regression approach to the inference of regulatory networks from gene expression data

Simon Rogers, Mark A. Girolami, M. Girolami, 2005, Bioinform..

Segmentation of Multi-Isotope Imaging Mass Spectrometry Data for Semi-Automatic Detection of Regions of Interest

Stefan Reckow, Christoph W. Turck, Philipp Gormanns, 2012, PloS one.

Ranking microbial metabolomic and genomic links using correlation-based and feature-based scoring functions

Katherine R. Duncan, Grimur Hjorleifsson Eldjarn, Juho Rousu, 2020 .

Deciphering complex metabolite mixtures by unsupervised and supervised substructure discovery and semi-automated annotation from MS/MS spectra

Lars Ridder, Joe Wandy, Simon Rogers, 2018, bioRxiv.

Query Learning with Gaussian Processes

C. Campbell, S. Rogers, Simon Rogers, 2003 .

Incorporating peak grouping information for alignment of multiple liquid chromatography-mass spectrometry datasets

Rainer Breitling, Joe Wandy, Simon Rogers, 2015, Bioinform..

A First Course in Machine Learning

Simon Rogers, Mark A. Girolami, M. Girolami, 2011, Chapman and Hall / CRC machine learning and pattern recognition series.

TopNEXt: automatic DDA exclusion framework for multi-sample mass spectrometry experiments

K. Bryson, S. Rogers, Stefan Weidt, 2023, bioRxiv.

Simulated-to-real Benchmarking of Acquisition Methods in Metabolomics

K. Bryson, S. Rogers, J. V. D. van der Hooft, 2023, bioRxiv.

Gene expression TopNEXt: automatic DDA exclusion framework for multi-sample mass spectrometry experiments

K. Bryson, Joe Wandy, Vinny Davies, 2023 .

The latent process decomposition of cDNA microarray data sets

Colin Campbell, Rainer Breitling, Simon Rogers, 2005, IEEE/ACM Transactions on Computational Biology and Bioinformatics.

Class Prediction with Microarray Datasets

Simon Rogers, Colin Campbell, S. Rogers, 2004 .

A Bayesian regression approach to the inference of regulatory networks from gene expression data

M. Girolami, Simon Rogers, 2005, Bioinform..

R package for statistical inference in dynamical systems using kernel based gradient matching: KGode

Dirk Husmeier, Simon Rogers, Joe Wandy, 2020, Computational Statistics.

Hierarchic Bayesian models for kernel learning

Simon Rogers, Mark A. Girolami, M. Girolami, 2005, ICML.