| Optimizing eukaryotic cell hosts for protein production through systems biotechnology and genome-scale modeling. |
J.M. Gutierrez; N.E. Lewis |
2015 |
| SBMLsqueezer 2: context-sensitive creation of kinetic equations in biochemical networks. |
A. Dräger; D.C. Zielinski; R. Keller; M. Rall; J. Eichner; B.O. Palsson; A. Zell |
2015 |
| The architecture of ArgR-DNA complexes at the genome-scale in Escherichia coli. |
S. Cho; Y.B. Cho; T.Jin Kang; S.Chang Kim; B. Palsson; B.K. Cho |
2015 |
| Model-driven discovery of synergistic inhibitors against E. coli and S. enterica serovar Typhimurium targeting a novel synthetic lethal pair, aldA and prpC. |
R.K. Aziz; V.L. Khaw; J.M. Monk; E. Brunk; R. Lewis; S.I. Loh; A. Mishra; A.A. Nagle; C. Satyanarayana; S. Dhakshinamoorthy; M. Luche; D.B. Kitchen; K.A. Andrews; B.Ø. Palsson; P. Charusanti |
2015 |
| Multidimensional Analytical Approach Based on UHPLC-UV-Ion Mobility-MS for the Screening of Natural Pigments. |
T. Pacini; W. Fu; S. Gudmundsson; E. Chiaravalle; S. Brynjolfson; B.O. Palsson; G. Astarita; G. Paglia |
2015 |
| Escher: A Web Application for Building, Sharing, and Embedding Data-Rich Visualizations of Biological Pathways. |
Z.A. King; A. Dräger; A. Ebrahim; N. Sonnenschein; N.E. Lewis; B.O. Palsson |
2015 |
| Next-generation genome-scale models for metabolic engineering. |
Z.A. King; C.J. Lloyd; A.M. Feist; B.O. Palsson |
2015 |
| Genome-wide Reconstruction of OxyR and SoxRS Transcriptional Regulatory Networks under Oxidative Stress in Escherichia coli K-12 MG1655. |
S.Woo Seo; D. Kim; R. Szubin; B.O. Palsson |
2015 |
| Computing the functional proteome: recent progress and future prospects for genome-scale models. |
E.J. O'Brien; B.O. Palsson |
2015 |
| Systems biology definition of the core proteome of metabolism and expression is consistent with high-throughput data. |
L. Yang; J. Tan; E.J. O'Brien; J.M. Monk; D. Kim; H.J. Li; P. Charusanti; A. Ebrahim; C.J. Lloyd; J.T. Yurkovich; B. Du; A. Dräger; A. Thomas; Y. Sun; M.A. Saunders; B.O. Palsson |
2015 |
| Decoding genome-wide GadEWX-transcriptional regulatory networks reveals multifaceted cellular responses to acid stress in Escherichia coli. |
S.Woo Seo; D. Kim; E.J. O'Brien; R. Szubin; B.O. Palsson |
2015 |
| Model-driven discovery of underground metabolic functions in Escherichia coli. |
G.I. Guzman; J. Utrilla; S. Nurk; E. Brunk; J.M. Monk; A. Ebrahim; B.O. Palsson; A.M. Feist |
2015 |
| Improving collaboration by standardization efforts in systems biology. |
A. Dräger; B.Ø. Palsson |
2014 |
| Predicting microbial growth. |
J. Monk; B.O. Palsson |
2014 |
| Capsule deletion via a lamda-Red knockout system perturbs biofilm formation and fimbriae expression in Klebsiella pneumoniae MGH 78578. |
T.W. Huang; I. Lam; H.Y. Chang; S.F. Tsai; B.O. Palsson; P. Charusanti |
2014 |
| Discovery of key mutations enabling rapid growth of Escherichia coli K-12 MG1655 on glucose minimal media using adaptive laboratory evolution. |
R.A. LaCroix; T.E. Sandberg; E.J. O'Brien; J. Utrilla; A. Ebrahim; G.I. Guzman; R. Szubin; B.O. Palsson; A.M. Feist |
2014 |
| Comprehensive metabolomic study of platelets reveals the expression of discrete metabolic phenotypes during storage. |
G. Paglia; O.E. Sigurjónsson; O. Rolfsson; S. Valgeirsdottir; M.Bagge Hansen; S. Brynjólfsson; S. Gudmundsson; B.O. Palsson |
2014 |
| The Metabolic Impact of a NADH-producing Glucose-6-phosphate Dehydrogenase in Escherichia coli. |
K. Olavarria; J. De Ingeniis; D.C. Zielinski; M. Fuentealba; R. Muñoz; D. McCloskey; A.M. Feist; R. Cabrera |
2014 |
| Tracing Compartmentalized NADPH Metabolism in the Cytosol and Mitochondria of Mammalian Cells. |
C.A. Lewis; S.J. Parker; B.P. Fiske; D. McCloskey; D.Y. Gui; C.R. Green; N.I. Vokes; A.M. Feist; M.G.Vander Heiden; C.M. Metallo |
2014 |
| Supplementation of Saturated Long-chain Fatty Acids Maintains Intestinal Eubiosis and Reduces Ethanol-induced Liver Injury in Mice. |
P. Chen; M. Torralba; J. Tan; M. Embree; K. Zengler; P. Stärkel; J.P. van Pijkeren; J. DePew; R. Loomba; S.B. Ho; J.S. Bajaj; E.A. Mutlu; A. Keshavarzian; H. Tsukamoto; K.E. Nelson; D.E. Fouts; B. Schnabl |
2014 |
| Optimal cofactor swapping can increase the theoretical yield for chemical production in Escherichia coli and Saccharomyces cerevisiae. |
Z.A. King; A.M. Feist |
2014 |
| Fast Swinnex filtration (FSF): a fast and robust sampling and extraction method suitable for metabolomics analysis of cultures grown in complex media |
D.M. McCloskey; J. Utrilla; R.K. Naviaux; B.O. Palsson; A.M. Feist |
2014 |
| Biochemical Characterization of Human Gluconokinase and the Proposed Metabolic Impact of Gluconic Acid as Determined by Constraint Based Metabolic Network Analysis. |
N. Rohatgi; T.Kragh Nielsen; S.Petersen Bjørn; I. Axelsson; G. Paglia; B.Gunnar Voldborg; B.O. Palsson; O. Rolfsson |
2014 |
| A Systems Approach to Predict Oncometabolites via Context-Specific Genome-Scale Metabolic Networks. |
H. Nam; M. Campodonico; A. Bordbar; D.R. Hyduke; S. Kim; D.C. Zielinski; B.O. Palsson |
2014 |
| Engineering synergy in biotechnology. |
J. Nielsen; M. Fussenegger; J. Keasling; S.Y. Lee; J.C. Liao; K. Prather; B. Palsson |
2014 |
| Reconstruction and modeling protein translocation and compartmentalization in Escherichia coli at the genome-scale. |
J.K. Liu; E.J.O. Brien; J.A. Lerman; K. Zengler; B.O. Palsson; A.M. Feist |
2014 |
| Optimizing genome-scale network reconstructions. |
J. Monk; J. Nogales; B.O. Palsson |
2014 |
| Deciphering Fur transcriptional regulatory network highlights its complex role beyond iron metabolism in Escherichia coli. |
S.Woo Seo; D. Kim; H. Latif; E.J. O'Brien; R. Szubin; B.O. Palsson |
2014 |
| Constraint-Based Modeling of Carbon Fixation and the Energetics of Electron Transfer in Geobacter metallireducens. |
A.M. Feist; H. Nagarajan; A.E. Rotaru; P.L. Tremblay; T. Zhang; K.P. Nevin; D.R. Lovley; K. Zengler |
2014 |
| From random mutagenesis to systems biology in metabolic engineering of mammalian cells |
H. Hefzi; N.E. Lewis |
2014 |