Ines Thiele

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Bernhard PalssonUCSDVerified email at eng.ucsd.edu
Ronan M.T. FlemingSenior Lecturer, National University of Ireland, Galway, & Asst. Professor, Leiden UniversityVerified email at lacdr.leidenuniv.nl
Almut HeinkenNational University of Ireland, GalwayVerified email at nuigalway.ie
Stefania MagnusdottirPhD Student, University of LuxembourgVerified email at uni.lu
Adam FeistUCSD / DTUVerified email at ucsd.edu
Nathan E LewisAssociate Professor, University of California, San DiegoVerified email at ucsd.edu
Nathan D. Price, Ph.D.CEO Onegevity (a division of Thorne HealthTech); Professor, Institute for Systems BiologyVerified email at systemsbiology.org
Thomas HankemeierProfessor of Analytical Biosciences, Leiden UniversityVerified email at lacdr.leidenuniv.nl
Gabi KastenmüllerHelmholtz Zentrum München - German Research Center for Environmental HealthVerified email at helmholtz-muenchen.de
Markus HerrgardCTO, BioInnovation InstituteVerified email at novo.dk
Marta CascanteUniversitat de BarcelonaVerified email at ub.edu
Warwick DunnUniversity of Birmingham, UKVerified email at bham.ac.uk
David WishartProfessor, Depts. of Computing Science and Biological Sciences - University of AlbertaVerified email at ualberta.ca
Matej OrešičProfessor of Medical Sciences (Systems Medicine), Örebro University & Turku Bioscience CentreVerified email at oru.se
Lorraine BrennanUCDVerified email at ucd.ie
Oliver FiehnUC DavisVerified email at ucdavis.edu
Karen P. ScottSenior Research Fellow, Rowett Institute of Nutrition and Health, University of AberdeenVerified email at abdn.ac.uk
Michael SaundersProfessor of Operations Research, Stanford UniversityVerified email at stanford.edu
Heinz P. NasheuerProfessor, Dr. rer. nat., NUI Galway, Biochemistry - School of Natural SciencesVerified email at nuigalway.ie
David BroadhurstProfessor, Biostatistics & Clinical Data Science, School of Science, Edith Cowan UniversityVerified email at ecu.edu.au

Ines Thiele

National University of Ireland, Galway

Verified email at nuigalway.ie

constraint-based modeling multiscale modeling human metabolism gut microbiome gut-brain-axis


Title Sort by citations Sort by year Sort by title	Cited by Cited by	Year
What is flux balance analysis? JD Orth, I Thiele, BØ Palsson Nature biotechnology 28 (3), 245-248, 2010	2880	2010
The subsystems approach to genome annotation and its use in the project to annotate 1000 genomes R Overbeek, T Begley, RM Butler, JV Choudhuri, HY Chuang, M Cohoon, ... Nucleic acids research 33 (17), 5691-5702, 2005	1918	2005
A protocol for generating a high-quality genome-scale metabolic reconstruction I Thiele, BØ Palsson Nature protocols 5 (1), 93, 2010	1470	2010
Global reconstruction of the human metabolic network based on genomic and bibliomic data NC Duarte, SA Becker, N Jamshidi, I Thiele, ML Mo, TD Vo, R Srivas, ... Proceedings of the National Academy of Sciences 104 (6), 1777-1782, 2007	1437	2007
Quantitative prediction of cellular metabolism with constraint-based models: the COBRA Toolbox v2. 0 J Schellenberger, R Que, RMT Fleming, I Thiele, JD Orth, AM Feist, ... Nature protocols 6 (9), 1290, 2011	1422	2011
A community-driven global reconstruction of human metabolism I Thiele, N Swainston, RMT Fleming, A Hoppe, S Sahoo, MK Aurich, ... Nature biotechnology 31 (5), 419-425, 2013	973	2013
Reconstruction of biochemical networks in microorganisms AM Feist, MJ Herrgård, I Thiele, JL Reed, BØ Palsson Nature Reviews Microbiology 7 (2), 129-143, 2009	973	2009
Gut microbiota functions: metabolism of nutrients and other food components I Rowland, G Gibson, A Heinken, K Scott, J Swann, I Thiele, K Tuohy European journal of nutrition 57 (1), 1-24, 2018	717	2018
Towards multidimensional genome annotation JL Reed, I Famili, I Thiele, BO Palsson Nature Reviews Genetics 7 (2), 130-141, 2006	426	2006
Generation of genome-scale metabolic reconstructions for 773 members of the human gut microbiota S Magnúsdóttir, A Heinken, L Kutt, DA Ravcheev, E Bauer, A Noronha, ... Nature biotechnology 35 (1), 81-89, 2017	350	2017
Creation and analysis of biochemical constraint-based models using the COBRA Toolbox v. 3.0 L Heirendt, S Arreckx, T Pfau, SN Mendoza, A Richelle, A Heinken, ... Nature protocols 14 (3), 639-702, 2019	334	2019
Metabolomics enables precision medicine:“a white paper, community perspective” RD Beger, W Dunn, MA Schmidt, SS Gross, JA Kirwan, M Cascante, ... Metabolomics 12 (9), 1-15, 2016	331*	2016
Systematic genome assessment of B-vitamin biosynthesis suggests co-operation among gut microbes S Magnúsdóttir, D Ravcheev, V de Crécy-Lagard, I Thiele Frontiers in genetics 6, 148, 2015	297	2015
Detailing the optimality of photosynthesis in cyanobacteria through systems biology analysis J Nogales, S Gudmundsson, EM Knight, BO Palsson, I Thiele Proceedings of the National Academy of Sciences 109 (7), 2678-2683, 2012	287	2012
Expanded metabolic reconstruction of Helicobacter pylori (iIT341 GSM/GPR): an in silico genome-scale characterization of single-and double-deletion mutants I Thiele, TD Vo, ND Price, BØ Palsson Journal of bacteriology 187 (16), 5818-5830, 2005	274	2005
Computationally efficient flux variability analysis S Gudmundsson, I Thiele BMC bioinformatics 11 (1), 1-3, 2010	273	2010
A genome-scale metabolic reconstruction of Pseudomonas putida KT2440: iJN746 as a cell factory J Nogales, B Palsson, I Thiele BMC systems biology 2 (1), 79, 2008	262	2008
Recon3D enables a three-dimensional view of gene variation in human metabolism E Brunk, S Sahoo, DC Zielinski, A Altunkaya, A Dräger, N Mih, F Gatto, ... Nature biotechnology 36 (3), 272, 2018	244	2018
Genome-scale reconstruction of Escherichia coli's transcriptional and translational machinery: a knowledge base, its mathematical formulation, and its functional characterization I Thiele, N Jamshidi, RMT Fleming, BØ Palsson PLoS Comput Biol 5 (3), e1000312, 2009	211	2009
Systems-level characterization of a host-microbe metabolic symbiosis in the mammalian gut A Heinken, S Sahoo, RMT Fleming, I Thiele Gut microbes 4 (1), 28-40, 2013	195	2013

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