Timothy M. D. Ebbels

According to our database, Timothy M. D. Ebbels authored at least 25 papers between 2006 and 2024.

Collaborative distances:

• Dijkstra number of five.
• Erdős number of three.

2024

LAVASET: Latent Variable Stochastic Ensemble of Trees. An ensemble method for correlated datasets with spatial, spectral, and temporal dependencies.

Melpomeni Kasapi, Kexin Xu, Timothy M. D. Ebbels, Declan P. O'Regan, James S. Ware, Joram M. Posma

Bioinform., March, 2024

Genome scale metabolic network modelling for metabolic profile predictions.

Juliette Cooke, Maxime Delmas, Cecilia Wieder, Pablo Rodríguez-Mier, Clément Frainay, Florence Vinson, Timothy M. D. Ebbels, Nathalie Poupin, Fabien Jourdan

PLoS Comput. Biol., February, 2024

PathIntegrate: Multivariate modelling approaches for pathway-based multi-omics data integration.

Cecilia Wieder, Juliette Cooke, Clément Frainay, Nathalie Poupin, Russell Bowler, Fabien Jourdan, Katerina J. Kechris, Rachel P. J. Lai, Timothy M. D. Ebbels

PLoS Comput. Biol., 2024

Computational Metabolomics: Towards Molecules, Models, and their Meaning (Dagstuhl Seminar 24181).

Timothy M. D. Ebbels, Soha Hassoun, Ewy A. Mathé, Justin J. J. van der Hooft, Haley Chatelaine

Dagstuhl Reports, 2024

2022

Computational Metabolomics: From Spectra to Knowledge (Dagstuhl Seminar 22181).

Corey Broeckling, Timothy M. D. Ebbels, Ewy A. Mathé, Nicola Zamboni, Cecilia Wieder

Dagstuhl Reports, 2022

Single sample pathway analysis in metabolomics: performance evaluation and application.

Cecilia Wieder, Rachel P. J. Lai, Timothy M. D. Ebbels

BMC Bioinform., 2022

2021

Pathway analysis in metabolomics: Recommendations for the use of over-representation analysis.

Cecilia Wieder, Clément Frainay, Nathalie Poupin, Pablo Rodríguez-Mier, Florence Vinson, Juliette Cooke, Rachel P. J. Lai, Jacob G. Bundy, Fabien Jourdan, Timothy M. D. Ebbels

PLoS Comput. Biol., 2021

Multiple-testing correction in metabolome-wide association studies.

Alina Peluso, Robert C. Glen, Timothy M. D. Ebbels

BMC Bioinform., 2021

2020

Integrative analysis of time course metabolic data and biomarker discovery.

Takoua Jendoubi, Timothy M. D. Ebbels

BMC Bioinform., 2020

Targeted realignment of LC-MS profiles by neighbor-wise compound-specific graphical time warping with misalignment detection.

Chiung-Ting Wu, Yizhi Wang, Yinxue Wang, Timothy M. D. Ebbels, Ibrahim Karaman, Gonçalo Graça, Rui Pinto, David M. Herrington, Yue Wang, Guoqiang Yu

Bioinform., 2020

2019

Metabolomics in the Cloud: Scaling Computational Tools to Big Data.

Jianliang Gao, Noureddin Sadawi, Ibrahim Karaman, Jake T. M. Pearce, Pablo A. Moreno, Anders Larsson, Marco Capuccini, Paul Elliott, Jeremy K. Nicholson, Timothy M. D. Ebbels, Robert C. Glen

CoRR, 2019

Predictive modelling using pathway scores: robustness and significance of pathway collections.

Marcelo P. Segura-Lepe, Hector C. Keun, Timothy M. D. Ebbels

BMC Bioinform., 2019

2017

The future of metabolomics in ELIXIR.

Merlijn N. van Rijswijk, Charlie Beirnaert, Christophe Caron, Marta Cascante, Victoria Dominguez Del Angel, Warwick B. Dunn, Timothy M. D. Ebbels, Franck Giacomoni, Alejandra N. González-Beltrán, Thomas Hankemeier, Kenneth Haug, Jose L. Izquierdo-García, Rafael C. Jiménez, Fabien Jourdan, Namrata Kale, Maria I. Klapa, Oliver Kohlbacher, Kairi Koort, Kim Kultima, Gildas Le Corguillé, Nicholas K. Moschonas, Steffen Neumann, Claire O'Donovan, Martin Reczko, Philippe Rocca-Serra, Antonio Rosato, Reza M. Salek, Susanna-Assunta Sansone, Venkata P. Satagopam, Daniel Schober, Ruth Shimmo, Rachel A. Spicer, Ola Spjuth, Etienne A. Thévenot, Mark R. Viant, Ralf J. M. Weber, Egon L. Willighagen, Gianluigi Zanetti, Christoph Steinbeck

F1000Research, 2017

2015

Over-representation of correlation analysis (ORCA): a method for identifying associations between variable sets.

Yotsawat Pomyen, Marcelo Segura, Timothy M. D. Ebbels, Hector C. Keun

Bioinform., 2015

diXa: a data infrastructure for chemical safety assessment.

Diana M. Hendrickx, Hugo J. W. L. Aerts, Florian Caiment, Dominic Clark, Timothy M. D. Ebbels, Chris T. A. Evelo, Hans Gmuender, Dennie G. A. J. Hebels, Ralf Herwig, Jürgen Hescheler, Danyel G. J. Jennen, Marlon J. A. Jetten, Stathis Kanterakis, Hector C. Keun, Vera Matser, John P. Overington, Ekaterina Pilicheva, Ugis Sarkans, Marcelo P. Segura-Lepe, Isaia Sotiriadou, Timo Wittenberger, Clemens Wittwehr, Antonella Zanzi, Jos C. S. Kleinjans

Bioinform., 2015

2012

BATMAN - an R package for the automated quantification of metabolites from nuclear magnetic resonance spectra using a Bayesian model.

Jie Hao, William J. Astle, Maria De Iorio, Timothy M. D. Ebbels

Bioinform., 2012

2011

Consensus-Phenotype Integration of Transcriptomic and Metabolomic Data Implies a Role for Metabolism in the Chemosensitivity of Tumour Cells.

Rachel Cavill, Atanas Kamburov, James K. Ellis, Toby J. Athersuch, Marcus S. C. Blagrove, Ralf Herwig, Timothy M. D. Ebbels, Hector C. Keun

PLoS Comput. Biol., 2011

Integrated pathway-level analysis of transcriptomics and metabolomics data with IMPaLA.

Atanas Kamburov, Rachel Cavill, Timothy M. D. Ebbels, Ralf Herwig, Hector C. Keun

Bioinform., 2011

A statistical framework for biomarker discovery in metabolomic time course data.

Maurice Berk, Timothy M. D. Ebbels, Giovanni Montana

Bioinform., 2011

2010

Correlation Network Analysis reveals a sequential reorganization of metabolic and transcriptional states during germination and gene-metabolite relationships in developing seedlings of Arabidopsis.

Elizabeth Allen, Annick Moing, Timothy M. D. Ebbels, Mickaël Maucourt, A. Deri Tomos, Dominique Rolin, Mark A. Hooks

BMC Syst. Biol., 2010

MetAssimulo: Simulation of Realistic NMR Metabolic Profiles.

Harriet J. Muncey, Rebecca Jones, Maria De Iorio, Timothy M. D. Ebbels

BMC Bioinform., 2010

Correction of mass calibration gaps in liquid chromatography-mass spectrometry metabolomics data.

H. Paul Benton, Elizabeth J. Want, Timothy M. D. Ebbels

Bioinform., 2010

2009

Genetic algorithms for simultaneous variable and sample selection in metabonomics.

Rachel Cavill, Hector C. Keun, Elaine Holmes, John C. Lindon, Jeremy K. Nicholson, Timothy M. D. Ebbels

Bioinform., 2009

2008

Piecewise multivariate modelling of sequential metabolic profiling data.

Mattias Rantalainen, Olivier Cloarec, Timothy M. D. Ebbels, Torbjörn Lundstedt, Jeremy K. Nicholson, Elaine Holmes, Johan Trygg

BMC Bioinform., 2008

2006

<i>springScape</i>: visualisation of microarray and contextual bioinformatic data using spring embedding and an "information landscape".

Timothy M. D. Ebbels, Bernard F. Buxton, David T. Jones

Proceedings of the Proceedings 14th International Conference on Intelligent Systems for Molecular Biology 2006, 2006