Ines Thiele
Ines Thiele
University of Galway
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Cited by
Cited by
What is flux balance analysis?
JD Orth, I Thiele, BØ Palsson
Nature biotechnology 28 (3), 245-248, 2010
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, 1-24, 2018
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
A protocol for generating a high-quality genome-scale metabolic reconstruction
I Thiele, BØ Palsson
Nature protocols 5 (1), 93-121, 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
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), 1290-1307, 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
Reconstruction of biochemical networks in microorganisms
AM Feist, MJ Herrgård, I Thiele, JL Reed, BØ Palsson
Nature Reviews Microbiology 7 (2), 129-143, 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
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
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
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), 272-281, 2018
Metabolomics enables precision medicine:“a white paper, community perspective”
RD Beger, W Dunn, MA Schmidt, SS Gross, JA Kirwan, M Cascante, ...
Metabolomics 12, 1-15, 2016
Towards multidimensional genome annotation
JL Reed, I Famili, I Thiele, BO Palsson
Nature Reviews Genetics 7 (2), 130-141, 2006
Computationally efficient flux variability analysis
S Gudmundsson, I Thiele
BMC bioinformatics 11, 1-3, 2010
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
The Virtual Metabolic Human database: integrating human and gut microbiome metabolism with nutrition and disease
A Noronha, J Modamio, Y Jarosz, E Guerard, N Sompairac, G Preciat, ...
Nucleic acids research 47 (D1), D614-D624, 2019
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
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
Systematic assessment of secondary bile acid metabolism in gut microbes reveals distinct metabolic capabilities in inflammatory bowel disease
A Heinken, DA Ravcheev, F Baldini, L Heirendt, RMT Fleming, I Thiele
Microbiome 7, 1-18, 2019
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