Ines Thiele

According to our database1, Ines Thiele authored at least 25 papers between 2007 and 2019.

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Bibliography

2019
The Virtual Metabolic Human database: integrating human and gut microbiome metabolism with nutrition and disease.
Nucleic Acids Research, 2019

Dynamic genome-scale cell-specific metabolic models reveal novel inter-cellular and intra-cellular metabolic communications during ovarian follicle development.
BMC Bioinformatics, 2019

The Microbiome Modeling Toolbox: from microbial interactions to personalized microbial communities.
Bioinformatics, 2019

2017
BacArena: Individual-based metabolic modeling of heterogeneous microbes in complex communities.
PLoS Computational Biology, 2017

A systems approach reveals distinct metabolic strategies among the NCI-60 cancer cell lines.
PLoS Computational Biology, 2017

Comparative evaluation of atom mapping algorithms for balanced metabolic reactions: application to Recon 3D.
J. Cheminformatics, 2017

ARTENOLIS: Automated Reproducibility and Testing Environment for Licensed Software.
CoRR, 2017

ReconMap: an interactive visualization of human metabolism.
Bioinformatics, 2017

DistributedFBA.jl: high-level, high-performance flux balance analysis in Julia.
Bioinformatics, 2017

CHRR: coordinate hit-and-run with rounding for uniform sampling of constraint-based models.
Bioinformatics, 2017

2014
Comparative evaluation of open source software for mapping between metabolite identifiers in metabolic network reconstructions: application to Recon 2.
J. Cheminformatics, 2014

fastGapFill: efficient gap filling in metabolic networks.
Bioinformatics, 2014

2013
Consensus and conflict cards for metabolic pathway databases.
BMC Systems Biology, 2013

Robust flux balance analysis of multiscale biochemical reaction networks.
BMC Bioinformatics, 2013

2011
A community effort towards a knowledge-base and mathematical model of the human pathogen Salmonella Typhimurium LT2.
BMC Systems Biology, 2011

The human metabolic reconstruction Recon 1 directs hypotheses of novel human metabolic functions.
BMC Systems Biology, 2011

rBioNet: A COBRA toolbox extension for reconstructing high-quality biochemical networks.
Bioinformatics, 2011

von Bertalanffy 1.0: a COBRA toolbox extension to thermodynamically constrain metabolic models.
Bioinformatics, 2011

2010
A detailed genome-wide reconstruction of mouse metabolism based on human Recon 1.
BMC Systems Biology, 2010

Computationally efficient flux variability analysis.
BMC Bioinformatics, 2010

2009
Metabolic Systems Biology.
Proceedings of the Encyclopedia of Complexity and Systems Science, 2009

Genome-Scale Reconstruction of Escherichia coli's Transcriptional and Translational Machinery: A Knowledge Base, Its Mathematical Formulation, and Its Functional Characterization.
PLoS Computational Biology, 2009

Identification of Potential Pathway Mediation Targets in Toll-like Receptor Signaling.
PLoS Computational Biology, 2009

2008
A genome-scale metabolic reconstruction of Pseudomonas putida KT2440: iJN746 as a cell factory.
BMC Systems Biology, 2008

2007
Estimation of the number of extreme pathways for metabolic networks.
BMC Bioinformatics, 2007


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