Markus Herrgard

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Bernhard PalssonUCSDVerified email at eng.ucsd.edu
Adam FeistUCSD / DTUVerified email at ucsd.edu
Markus CovertStanford UniversityVerified email at stanford.edu
Daniel MachadoNorwegian University of Science and TechnologyVerified email at ntnu.no
Nikolaus SonnenscheinDTU BioengineeringVerified email at dtu.dk
Rebecca M LennenSenior Researcher, Novo Nordisk Foundation Center for Biosustainability, Technical University ofVerified email at biosustain.dtu.dk
Irina BorodinaThe Novo Nordisk Foundation Center for Biosustainability, Technical University of DenmarkVerified email at biosustain.dtu.dk
Jens NielsenProfessor in Systems Biology, Chalmers University of Technology, SwedenVerified email at chalmers.se
William P. InskeepProfessor, Montana State UniversityVerified email at montana.edu
Douglas B RuschIndiana University BloomingtonVerified email at indiana.edu
Zackary J JayMontana State UniversityVerified email at montana.edu
Scott J HarrisonAffinity Biomarker LabsVerified email at affinitybiomarkerlabs.com
Lasse Ebdrup PedersenNNF Center for Biosustainability at The Technical University of DenmarkVerified email at biosustain.DTU.dk
Morten O A SommerProfessor, Technical University of DenmarkVerified email at bio.dtu.dk
Konstantin SchneiderBASF SEVerified email at basf.com
Susannah TringeEnvironmental Genomics and Systems Biology, Lawrence Berkeley National LaboratoryVerified email at lbl.gov
Christian LievenNovo Nordisk Foundation Center for BiosustainabilityVerified email at biosustain.dtu.dk
Eytan RuppinChief, Cancer Data Science Lab (CDSL), NCI/NIHVerified email at nih.gov
Tomer ShlomiAssociate Professor of Computer Science, TechnionVerified email at cs.technion.ac.il
Jay KeaslingProfessor of Chemical & Biomolecular Engineering and of Bioengineering, University of CaliforniaVerified email at lbl.gov

Markus Herrgard

CTO, BioInnovation Institute

Verified email at novo.dk - Homepage

Synthetic Biology Metabolic Engineering Systems Biology


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Reconstruction of biochemical networks in microorganisms AM Feist, MJ Herrgård, I Thiele, JL Reed, BØ Palsson Nature Reviews Microbiology 7 (2), 129-143, 2009	978	2009
Integrating high-throughput and computational data elucidates bacterial networks MW Covert, EM Knight, JL Reed, MJ Herrgard, BO Palsson Nature 429 (6987), 92-96, 2004	948	2004
Quantitative prediction of cellular metabolism with constraint-based models: the COBRA Toolbox SA Becker, AM Feist, ML Mo, G Hannum, BØ Palsson, MJ Herrgard Nature protocols 2 (3), 727, 2007	928	2007
Reconstruction and validation of Saccharomyces cerevisiae iND750, a fully compartmentalized genome-scale metabolic model NC Duarte, MJ Herrgård, BØ Palsson Genome research 14 (7), 1298-1309, 2004	770	2004
Network-based prediction of human tissue-specific metabolism T Shlomi, MN Cabili, MJ Herrgård, BØ Palsson, E Ruppin Nature biotechnology 26 (9), 1003-1010, 2008	653	2008
A consensus yeast metabolic network reconstruction obtained from a community approach to systems biology MJ Herrgård, N Swainston, P Dobson, WB Dunn, KY Arga, M Arvas, ... Nature biotechnology 26 (10), 1155-1160, 2008	616	2008
Connecting extracellular metabolomic measurements to intracellular flux states in yeast ML Mo, BØ Palsson, MJ Herrgård BMC systems biology 3 (1), 1-17, 2009	463	2009
Systematic evaluation of methods for integration of transcriptomic data into constraint-based models of metabolism D Machado, M Herrgård PLoS Comput Biol 10 (4), e1003580, 2014	334	2014
Multiplex metabolic pathway engineering using CRISPR/Cas9 in Saccharomyces cerevisiae T Jakočiūnas, I Bonde, M Herrgård, SJ Harrison, M Kristensen, ... Metabolic engineering 28, 213-222, 2015	330	2015
Integrated analysis of regulatory and metabolic networks reveals novel regulatory mechanisms in Saccharomyces cerevisiae MJ Herrgård, BS Lee, V Portnoy, BØ Palsson Genome research 16 (5), 627-635, 2006	270	2006
Model-driven evaluation of the production potential for growth-coupled products of Escherichia coli AM Feist, DC Zielinski, JD Orth, J Schellenberger, MJ Herrgard, ... Metabolic engineering 12 (3), 173-186, 2010	244	2010
Metagenomes from high-temperature chemotrophic systems reveal geochemical controls on microbial community structure and function WP Inskeep, DB Rusch, ZJ Jay, MJ Herrgard, MA Kozubal, ... PloS one 5 (3), e9773, 2010	192	2010
Reconstruction of microbial transcriptional regulatory networks MJ Herrgård, MW Covert, BØ Palsson Current opinion in biotechnology 15 (1), 70-77, 2004	183	2004
Reconciling gene expression data with known genome-scale regulatory network structures MJ Herrgård, MW Covert Genome Research 13 (11), 2423-2434, 2003	150	2003
Methods and systems to identify operational reaction pathways BO Palsson, MW Covert, M Herrgard US Patent 7,734,420, 2010	141	2010
Establishing a synthetic pathway for high-level production of 3-hydroxypropionic acid in Saccharomyces cerevisiae via β-alanine I Borodina, KR Kildegaard, NB Jensen, TH Blicher, J Maury, S Sherstyk, ... Metabolic engineering 27, 57-64, 2015	140	2015
Identification of genome-scale metabolic network models using experimentally measured flux profiles MJ Herrgård, SS Fong, BØ Palsson PLoS Comput Biol 2 (7), e72, 2006	133	2006
The YNP metagenome project: environmental parameters responsible for microbial distribution in the Yellowstone geothermal ecosystem WP Inskeep, ZJ Jay, SG Tringe, M Herrgard, DB Rusch Frontiers in microbiology 4, 67, 2013	118	2013
Genome-scale analysis of the uses of the Escherichia coli genome: model-driven analysis of heterogeneous data sets TE Allen, MJ Herrgård, M Liu, Y Qiu, JD Glasner, FR Blattner, BØ Palsson Journal of bacteriology 185 (21), 6392-6399, 2003	117	2003
Evolution of Escherichia coli to 42 °C and Subsequent Genetic Engineering Reveals Adaptive Mechanisms and Novel Mutations TE Sandberg, M Pedersen, RA LaCroix, A Ebrahim, M Bonde, ... Molecular biology and evolution 31 (10), 2647-2662, 2014	116	2014

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