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ORCIDBibTeX records: Timothy M. D. Ebbels
@article{DBLP:journals/bioinformatics/KasapiXEOWP24,
author = {Melpomeni Kasapi and
Kexin Xu and
Timothy M. D. Ebbels and
Declan P. O'Regan and
James S. Ware and
Joram M. Posma},
title = {{LAVASET:} Latent Variable Stochastic Ensemble of Trees. An ensemble
method for correlated datasets with spatial, spectral, and temporal
dependencies},
journal = {Bioinform.},
volume = {40},
number = {3},
year = {2024},
url = {https://doi.org/10.1093/bioinformatics/btae101},
doi = {10.1093/BIOINFORMATICS/BTAE101},
timestamp = {Mon, 01 Apr 2024 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bioinformatics/KasapiXEOWP24.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/CookeDWRFVEPJ24,
author = {Juliette Cooke and
Maxime Delmas and
Cecilia Wieder and
Pablo Rodr{\'{\i}}guez{-}Mier and
Cl{\'{e}}ment Frainay and
Florence Vinson and
Timothy M. D. Ebbels and
Nathalie Poupin and
Fabien Jourdan},
title = {Genome scale metabolic network modelling for metabolic profile predictions},
journal = {PLoS Comput. Biol.},
volume = {20},
number = {2},
year = {2024},
url = {https://doi.org/10.1371/journal.pcbi.1011381},
doi = {10.1371/JOURNAL.PCBI.1011381},
timestamp = {Sat, 16 Mar 2024 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/ploscb/CookeDWRFVEPJ24.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcbi/WiederLE22,
author = {Cecilia Wieder and
Rachel P. J. Lai and
Timothy M. D. Ebbels},
title = {Single sample pathway analysis in metabolomics: performance evaluation
and application},
journal = {{BMC} Bioinform.},
volume = {23},
number = {1},
pages = {481},
year = {2022},
url = {https://doi.org/10.1186/s12859-022-05005-1},
doi = {10.1186/S12859-022-05005-1},
timestamp = {Tue, 21 Mar 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bmcbi/WiederLE22.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/dagstuhl-reports/BroecklingEMZW22,
author = {Corey Broeckling and
Timothy M. D. Ebbels and
Ewy A Math{\'{e}} and
Nicola Zamboni and
Cecilia Wieder},
title = {Computational Metabolomics: From Spectra to Knowledge (Dagstuhl Seminar
22181)},
journal = {Dagstuhl Reports},
volume = {12},
number = {5},
pages = {1--16},
year = {2022},
url = {https://doi.org/10.4230/DagRep.12.5.1},
doi = {10.4230/DAGREP.12.5.1},
timestamp = {Fri, 15 Mar 2024 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/dagstuhl-reports/BroecklingEMZW22.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcbi/PelusoGE21,
author = {Alina Peluso and
Robert C. Glen and
Timothy M. D. Ebbels},
title = {Multiple-testing correction in metabolome-wide association studies},
journal = {{BMC} Bioinform.},
volume = {22},
number = {1},
pages = {67},
year = {2021},
url = {https://doi.org/10.1186/s12859-021-03975-2},
doi = {10.1186/S12859-021-03975-2},
timestamp = {Fri, 09 Apr 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bmcbi/PelusoGE21.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/WiederFPRVCLBJE21,
author = {Cecilia Wieder and
Cl{\'{e}}ment Frainay and
Nathalie Poupin and
Pablo Rodr{\'{\i}}guez{-}Mier and
Florence Vinson and
Juliette Cooke and
Rachel P. J. Lai and
Jacob G. Bundy and
Fabien Jourdan and
Timothy M. D. Ebbels},
title = {Pathway analysis in metabolomics: Recommendations for the use of over-representation
analysis},
journal = {PLoS Comput. Biol.},
volume = {17},
number = {9},
year = {2021},
url = {https://doi.org/10.1371/journal.pcbi.1009105},
doi = {10.1371/JOURNAL.PCBI.1009105},
timestamp = {Sun, 02 Oct 2022 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/WiederFPRVCLBJE21.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/WuWWEKGPHWY20,
author = {Chiung{-}Ting Wu and
Yizhi Wang and
Yinxue Wang and
Timothy M. D. Ebbels and
Ibrahim Karaman and
Gon{\c{c}}alo Gra{\c{c}}a and
Rui Pinto and
David M. Herrington and
Yue Wang and
Guoqiang Yu},
title = {Targeted realignment of {LC-MS} profiles by neighbor-wise compound-specific
graphical time warping with misalignment detection},
journal = {Bioinform.},
volume = {36},
number = {9},
pages = {2862--2871},
year = {2020},
url = {https://doi.org/10.1093/bioinformatics/btaa037},
doi = {10.1093/BIOINFORMATICS/BTAA037},
timestamp = {Tue, 21 Jun 2022 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bioinformatics/WuWWEKGPHWY20.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcbi/JendoubiE20,
author = {Takoua Jendoubi and
Timothy M. D. Ebbels},
title = {Integrative analysis of time course metabolic data and biomarker discovery},
journal = {{BMC} Bioinform.},
volume = {21},
number = {1},
pages = {11},
year = {2020},
url = {https://doi.org/10.1186/s12859-019-3333-0},
doi = {10.1186/S12859-019-3333-0},
timestamp = {Sat, 30 May 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bmcbi/JendoubiE20.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcbi/Segura-LepeKE19,
author = {Marcelo P. Segura{-}Lepe and
Hector C. Keun and
Timothy M. D. Ebbels},
title = {Predictive modelling using pathway scores: robustness and significance
of pathway collections},
journal = {{BMC} Bioinform.},
volume = {20},
number = {1},
pages = {543:1--543:11},
year = {2019},
url = {https://doi.org/10.1186/s12859-019-3163-0},
doi = {10.1186/S12859-019-3163-0},
timestamp = {Sat, 30 May 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bmcbi/Segura-LepeKE19.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/corr/abs-1904-02288,
author = {Jianliang Gao and
Noureddin Sadawi and
Ibrahim Karaman and
Jake T. M. Pearce and
Pablo A. Moreno and
Anders Larsson and
Marco Capuccini and
Paul Elliott and
Jeremy K. Nicholson and
Timothy M. D. Ebbels and
Robert C. Glen},
title = {Metabolomics in the Cloud: Scaling Computational Tools to Big Data},
journal = {CoRR},
volume = {abs/1904.02288},
year = {2019},
url = {http://arxiv.org/abs/1904.02288},
eprinttype = {arXiv},
eprint = {1904.02288},
timestamp = {Wed, 24 May 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/corr/abs-1904-02288.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/f1000research/RijswijkBCCADEG17,
author = {Merlijn N. van Rijswijk and
Charlie Beirnaert and
Christophe Caron and
Marta Cascante and
Victoria Dominguez Del Angel and
Warwick B. Dunn and
Timothy M. D. Ebbels and
Franck Giacomoni and
Alejandra N. Gonz{\'{a}}lez{-}Beltr{\'{a}}n and
Thomas Hankemeier and
Kenneth Haug and
Jose L. Izquierdo{-}Garc{\'{\i}}a and
Rafael C. Jim{\'{e}}nez and
Fabien Jourdan and
Namrata Kale and
Maria I. Klapa and
Oliver Kohlbacher and
Kairi Koort and
Kim Kultima and
Gildas Le Corguill{\'{e}} and
Nicholas K. Moschonas and
Steffen Neumann and
Claire O'Donovan and
Martin Reczko and
Philippe Rocca{-}Serra and
Antonio Rosato and
Reza M. Salek and
Susanna{-}Assunta Sansone and
Venkata P. Satagopam and
Daniel Schober and
Ruth Shimmo and
Rachel A. Spicer and
Ola Spjuth and
Etienne A. Th{\'{e}}venot and
Mark R. Viant and
Ralf J. M. Weber and
Egon L. Willighagen and
Gianluigi Zanetti and
Christoph Steinbeck},
title = {The future of metabolomics in {ELIXIR}},
journal = {F1000Research},
volume = {6},
pages = {1649},
year = {2017},
url = {https://doi.org/10.12688/f1000research.12342.1},
doi = {10.12688/F1000RESEARCH.12342.1},
timestamp = {Mon, 28 Aug 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/f1000research/RijswijkBCCADEG17.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/PomyenSEK15,
author = {Yotsawat Pomyen and
Marcelo Segura and
Timothy M. D. Ebbels and
Hector C. Keun},
title = {Over-representation of correlation analysis {(ORCA):} a method for
identifying associations between variable sets},
journal = {Bioinform.},
volume = {31},
number = {1},
pages = {102--108},
year = {2015},
url = {https://doi.org/10.1093/bioinformatics/btu589},
doi = {10.1093/BIOINFORMATICS/BTU589},
timestamp = {Fri, 27 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/PomyenSEK15.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/HendrickxACCEEG15,
author = {Diana M. Hendrickx and
Hugo J. W. L. Aerts and
Florian Caiment and
Dominic Clark and
Timothy M. D. Ebbels and
Chris T. A. Evelo and
Hans Gmuender and
Dennie G. A. J. Hebels and
Ralf Herwig and
J{\"{u}}rgen Hescheler and
Danyel G. J. Jennen and
Marlon J. A. Jetten and
Stathis Kanterakis and
Hector C. Keun and
Vera Matser and
John P. Overington and
Ekaterina Pilicheva and
Ugis Sarkans and
Marcelo P. Segura{-}Lepe and
Isaia Sotiriadou and
Timo Wittenberger and
Clemens Wittwehr and
Antonella Zanzi and
Jos C. S. Kleinjans},
title = {diXa: a data infrastructure for chemical safety assessment},
journal = {Bioinform.},
volume = {31},
number = {9},
pages = {1505--1507},
year = {2015},
url = {https://doi.org/10.1093/bioinformatics/btu827},
doi = {10.1093/BIOINFORMATICS/BTU827},
timestamp = {Fri, 27 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/HendrickxACCEEG15.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/HaoAIE12,
author = {Jie Hao and
William J. Astle and
Maria De Iorio and
Timothy M. D. Ebbels},
title = {{BATMAN} - an {R} package for the automated quantification of metabolites
from nuclear magnetic resonance spectra using a Bayesian model},
journal = {Bioinform.},
volume = {28},
number = {15},
pages = {2088--2090},
year = {2012},
url = {https://doi.org/10.1093/bioinformatics/bts308},
doi = {10.1093/BIOINFORMATICS/BTS308},
timestamp = {Sat, 30 Sep 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bioinformatics/HaoAIE12.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/BerkEM11,
author = {Maurice Berk and
Timothy M. D. Ebbels and
Giovanni Montana},
title = {A statistical framework for biomarker discovery in metabolomic time
course data},
journal = {Bioinform.},
volume = {27},
number = {14},
pages = {1979--1985},
year = {2011},
url = {https://doi.org/10.1093/bioinformatics/btr289},
doi = {10.1093/BIOINFORMATICS/BTR289},
timestamp = {Fri, 27 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/BerkEM11.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/KamburovCEHK11,
author = {Atanas Kamburov and
Rachel Cavill and
Timothy M. D. Ebbels and
Ralf Herwig and
Hector C. Keun},
title = {Integrated pathway-level analysis of transcriptomics and metabolomics
data with IMPaLA},
journal = {Bioinform.},
volume = {27},
number = {20},
pages = {2917--2918},
year = {2011},
url = {https://doi.org/10.1093/bioinformatics/btr499},
doi = {10.1093/BIOINFORMATICS/BTR499},
timestamp = {Sat, 30 Sep 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bioinformatics/KamburovCEHK11.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/CavillKEABHEK11,
author = {Rachel Cavill and
Atanas Kamburov and
James K. Ellis and
Toby J. Athersuch and
Marcus S. C. Blagrove and
Ralf Herwig and
Timothy M. D. Ebbels and
Hector C. Keun},
title = {Consensus-Phenotype Integration of Transcriptomic and Metabolomic
Data Implies a Role for Metabolism in the Chemosensitivity of Tumour
Cells},
journal = {PLoS Comput. Biol.},
volume = {7},
number = {3},
year = {2011},
url = {https://doi.org/10.1371/journal.pcbi.1001113},
doi = {10.1371/JOURNAL.PCBI.1001113},
timestamp = {Sat, 30 Sep 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/CavillKEABHEK11.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/BentonWE10,
author = {H. Paul Benton and
Elizabeth J. Want and
Timothy M. D. Ebbels},
title = {Correction of mass calibration gaps in liquid chromatography-mass
spectrometry metabolomics data},
journal = {Bioinform.},
volume = {26},
number = {19},
pages = {2488--2489},
year = {2010},
url = {https://doi.org/10.1093/bioinformatics/btq441},
doi = {10.1093/BIOINFORMATICS/BTQ441},
timestamp = {Fri, 27 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/BentonWE10.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcbi/MunceyJIE10,
author = {Harriet J. Muncey and
Rebecca Jones and
Maria De Iorio and
Timothy M. D. Ebbels},
title = {MetAssimulo: Simulation of Realistic {NMR} Metabolic Profiles},
journal = {{BMC} Bioinform.},
volume = {11},
pages = {496},
year = {2010},
url = {https://doi.org/10.1186/1471-2105-11-496},
doi = {10.1186/1471-2105-11-496},
timestamp = {Sun, 02 Oct 2022 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bmcbi/MunceyJIE10.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/AllenMEMTRH10,
author = {Elizabeth Allen and
Annick Moing and
Timothy M. D. Ebbels and
Micka{\"{e}}l Maucourt and
A. Deri Tomos and
Dominique Rolin and
Mark A. Hooks},
title = {Correlation Network Analysis reveals a sequential reorganization of
metabolic and transcriptional states during germination and gene-metabolite
relationships in developing seedlings of Arabidopsis},
journal = {{BMC} Syst. Biol.},
volume = {4},
pages = {62},
year = {2010},
url = {https://doi.org/10.1186/1752-0509-4-62},
doi = {10.1186/1752-0509-4-62},
timestamp = {Thu, 14 Oct 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bmcsb/AllenMEMTRH10.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/CavillKHLNE09,
author = {Rachel Cavill and
Hector C. Keun and
Elaine Holmes and
John C. Lindon and
Jeremy K. Nicholson and
Timothy M. D. Ebbels},
title = {Genetic algorithms for simultaneous variable and sample selection
in metabonomics},
journal = {Bioinform.},
volume = {25},
number = {1},
pages = {112--118},
year = {2009},
url = {https://doi.org/10.1093/bioinformatics/btn586},
doi = {10.1093/BIOINFORMATICS/BTN586},
timestamp = {Mon, 26 Oct 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/CavillKHLNE09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcbi/RantalainenCELNHT08,
author = {Mattias Rantalainen and
Olivier Cloarec and
Timothy M. D. Ebbels and
Torbj{\"{o}}rn Lundstedt and
Jeremy K. Nicholson and
Elaine Holmes and
Johan Trygg},
title = {Piecewise multivariate modelling of sequential metabolic profiling
data},
journal = {{BMC} Bioinform.},
volume = {9},
year = {2008},
url = {https://doi.org/10.1186/1471-2105-9-105},
doi = {10.1186/1471-2105-9-105},
timestamp = {Sun, 02 Oct 2022 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bmcbi/RantalainenCELNHT08.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/ismb/EbbelsBJ06,
author = {Timothy M. D. Ebbels and
Bernard F. Buxton and
David T. Jones},
title = {\emph{springScape}: visualisation of microarray and contextual bioinformatic
data using spring embedding and an "information landscape"},
booktitle = {Proceedings 14th International Conference on Intelligent Systems for
Molecular Biology 2006, Fortaleza, Brazil, August 6-10, 2006},
pages = {99--107},
year = {2006},
url = {https://doi.org/10.1093/bioinformatics/btl205},
doi = {10.1093/BIOINFORMATICS/BTL205},
timestamp = {Fri, 27 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/ismb/EbbelsBJ06.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
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