Daniel Robert Hyduke
Daniel Robert Hyduke
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Year
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
14172011
COBRApy: constraints-based reconstruction and analysis for python
A Ebrahim, JA Lerman, BO Palsson, DR Hyduke
BMC systems biology 7 (1), 1-6, 2013
6132013
Genome‐scale models of metabolism and gene expression extend and refine growth phenotype prediction
EJ O'brien, JA Lerman, RL Chang, DR Hyduke, Bě Palsson
Molecular systems biology 9 (1), 693, 2013
3842013
In silico method for modelling metabolism and gene product expression at genome scale
JA Lerman, DR Hyduke, H Latif, VA Portnoy, NE Lewis, JD Orth, ...
Nature communications 3 (1), 1-10, 2012
2572012
Nitric oxide is consumed, rather than conserved, by reaction with oxyhemoglobin under physiological conditions
MS Joshi, TB Ferguson, TH Han, DR Hyduke, JC Liao, T Rassaf, N Bryan, ...
Proceedings of the National Academy of Sciences 99 (16), 10341-10346, 2002
2442002
Modulation of nitric oxide bioavailability by erythrocytes
KT Huang, TH Han, DR Hyduke, MW Vaughn, H Van Herle, TW Hein, ...
Proceedings of the National Academy of Sciences 98 (20), 11771-11776, 2001
2052001
Analysis of omics data with genome-scale models of metabolism
DR Hyduke, NE Lewis, Bě Palsson
Molecular BioSystems 9 (2), 167-174, 2013
1732013
AMP-activated protein kinase promotes human prostate cancer cell growth and survival
HU Park, S Suy, M Danner, V Dailey, Y Zhang, H Li, DR Hyduke, ...
Molecular cancer therapeutics 8 (4), 733-741, 2009
1732009
Integrated network analysis identifies nitric oxide response networks and dihydroxyacid dehydratase as a crucial target in Escherichia coli
DR Hyduke, LR Jarboe, LM Tran, KJY Chou, JC Liao
Proceedings of the National Academy of Sciences 104 (20), 8484-8489, 2007
1592007
A community effort towards a knowledge-base and mathematical model of the human pathogen Salmonella Typhimurium LT2
I Thiele, DR Hyduke, B Steeb, G Fankam, DK Allen, S Bazzani, ...
BMC systems biology 5 (1), 1-9, 2011
1392011
Towards genome-scale signalling-network reconstructions
DR Hyduke, Bě Palsson
Nature Reviews Genetics 11 (4), 297-307, 2010
1392010
Model‐driven multi‐omic data analysis elucidates metabolic immunomodulators of macrophage activation
A Bordbar, ML Mo, ES Nakayasu, AC Schrimpe‐Rutledge, YM Kim, ...
Molecular systems biology 8 (1), 558, 2012
1372012
Pore size analysis of activated carbons from argon and nitrogen porosimetry using density functional theory
RJ Dombrowski, DR Hyduke, CM Lastoskie
Langmuir 16 (11), 5041-5050, 2000
1362000
Nitric oxide reaction with red blood cells and hemoglobin under heterogeneous conditions
TH Han, DR Hyduke, MW Vaughn, JM Fukuto, JC Liao
Proceedings of the National Academy of Sciences 99 (11), 7763-7768, 2002
1192002
Nitric oxide reaction with red blood cells and hemoglobin under heterogeneous conditions
TH Han, DR Hyduke, MW Vaughn, JM Fukuto, JC Liao
Proceedings of the National Academy of Sciences 99 (11), 7763-7768, 2002
1192002
GIM3E: condition-specific models of cellular metabolism developed from metabolomics and expression data
BJ Schmidt, A Ebrahim, TO Metz, JN Adkins, Bě Palsson, DR Hyduke
Bioinformatics 29 (22), 2900-2908, 2013
1172013
Comparison of toxicogenomics and traditional approaches to inform mode of action and points of departure in human health risk assessment of benzo[a]pyrene iná…
I Moffat, NL Chepelev, S Labib, J Bourdon-Lacombe, B Kuo, JK Buick, ...
Critical reviews in toxicology 45 (1), 1-43, 2015
1012015
Regulation of nitric oxide consumption by hypoxic red blood cells
TH Han, E Qamirani, AG Nelson, DR Hyduke, G Chaudhuri, L Kuo, ...
Proceedings of the National Academy of Sciences 100 (21), 12504-12509, 2003
712003
The Horvath–Kawazoe method revisited
RJ Dombrowski, CM Lastoskie, DR Hyduke
Colloids and Surfaces A: Physicochemical and Engineering Aspects 187, 23-39, 2001
602001
A systems approach to predict oncometabolites via context-specific genome-scale metabolic networks
H Nam, M Campodonico, A Bordbar, DR Hyduke, S Kim, DC Zielinski, ...
PLoS Comput Biol 10 (9), e1003837, 2014
562014
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Articles 1–20