Ines Thiele - Google Scholar Citations

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Co-authors

Bernhard PalssonUCSDVerified email at eng.ucsd.edu
Ronan M.T. FlemingAssistant Professor, Systems Biochemistry Group, Division of Systems Biomedicine and PharmacologyVerified email at lacdr.leidenuniv.nl
Almut HeinkenNational University of Ireland, GalwayVerified email at nuigalway.ie
Adam FeistUCSD / DTUVerified email at ucsd.edu
Stefania MagnusdottirPhD Student, University of LuxembourgVerified email at uni.lu
Nathan E LewisAssociate Professor, University of California, San DiegoVerified email at ucsd.edu
Nathan D. PriceProfessor & Associate Director, Institute for Systems BiologyVerified email at systemsbiology.org
Gabi KastenmüllerHelmholtz Zentrum München - German Research Center for Environmental HealthVerified email at helmholtz-muenchen.de
Markus HerrgardCTO, BioInnovation InstituteVerified email at novo.dk
Thomas HankemeierProfessor of Analytical Biosciences, Leiden UniversityVerified email at lacdr.leidenuniv.nl
Michael SaundersProfessor of Operations Research, Stanford UniversityVerified email at stanford.edu
Karen P. ScottSenior Research Fellow, Rowett Institute of Nutrition and Health, University of AberdeenVerified email at abdn.ac.uk
Heinz P. NasheuerProfessor, Dr. rer. nat., NUI Galway, Biochemistry - School of Natural SciencesVerified email at nuigalway.ie
David BroadhurstProfessor, Biological Data Science, School of Science, Edith Cowan UniversityVerified email at ecu.edu.au
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 OrešičTurku Bioscience Centre, University of Turku & School of Medical Sciences, Örebro UniversityVerified email at utu.fi
Lorraine BrennanUCDVerified email at ucd.ie
Oliver FiehnUC DavisVerified email at ucdavis.edu

Ines Thiele

National University of Ireland, Galway

Verified email at nuigalway.ie

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


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What is flux balance analysis? JD Orth, I Thiele, BØ Palsson Nature biotechnology 28 (3), 245-248, 2010	2564	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	1789	2005
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	1356	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	1335	2011
A protocol for generating a high-quality genome-scale metabolic reconstruction I Thiele, BØ Palsson Nature protocols 5 (1), 93, 2010	1310	2010
Reconstruction of biochemical networks in microorganisms AM Feist, MJ Herrgård, I Thiele, JL Reed, BØ Palsson Nature Reviews Microbiology 7 (2), 129-143, 2009	933	2009
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	903	2013
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	430	2018
Towards multidimensional genome annotation JL Reed, I Famili, I Thiele, BO Palsson Nature Reviews Genetics 7 (2), 130-141, 2006	412	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, 2017	276	2017
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	267	2005
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	263	2012
Metabolomics enables precision medicine:“a white paper, community perspective” RD Beger, W Dunn, MA Schmidt, SS Gross, JA Kirwan, M Cascante, ... Metabolomics 12 (9), 149, 2016	259	2016
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	238	2008
Computationally efficient flux variability analysis S Gudmundsson, I Thiele BMC bioinformatics 11 (1), 489, 2010	226	2010
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	218	2015
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	197	2009
Three-dimensional structural view of the central metabolic network of Thermotoga maritima Y Zhang, I Thiele, D Weekes, Z Li, L Jaroszewski, K Ginalski, AM Deacon, ... Science 325 (5947), 1544-1549, 2009	177	2009
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	175	2019
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	174	2013

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