| Systems-level analysis of NalD mutation, a recurrent driver of rapid drug resistance in acute Pseudomonas aeruginosa infection |
Yan J, Estanbouli H, Liao C, Kim W, Monk JM, Rahman R, Kamboj M, Palsson BO, Qiu W, Xavier JB |
2019 |
| DynamicME: dynamic simulation and refinement of integrated models of metabolism and protein expression |
Yang L, Ebrahim A, Lloyd CJ, Saunders MA, Palsson BO |
2019 |
| Inactivation of a Mismatch-Repair System Diversifies Genotypic Landscape of Escherichia coli During Adaptive Laboratory Evolution |
Kang M, Kim K, Choe D, Cho S, Kim SC, Palsson B, Cho BK |
2019 |
| A workflow for generating multi-strain genome-scale metabolic models of prokaryotes |
Norsigian CJ, Fang X, Seif Y, Monk JM, Palsson BO |
2019 |
| Coupling S-adenosylmethionine-dependent methylation to growth: Design and uses |
Luo H, Hansen ASL, Yang L, Schneider K, Kristensen M, Christensen U,
Christensen HB, Du B, Özdemir E, Feist AM, Keasling JD, Jensen MK, Herrgård MJ,
Palsson BO |
2019 |
| The Transcription Unit Architecture of Streptomyces lividans TK24 |
Lee Y, Lee N, Jeong Y, Hwang S, Kim W, Cho S, Palsson BO, Cho BK |
2019 |
| Enzyme promiscuity shapes adaptation to novel growth substrates |
Guzmán GI, Sandberg TE, LaCroix RA, Nyerges Á, Papp H, de Raad M, King ZA,
Hefner Y, Northen TR, Notebaart RA, Pál C, Palsson BO, Papp B, Feist AM |
2019 |
| The genetic basis for adaptation of model-designed syntrophic co-cultures |
Lloyd CJ, King ZA, Sandberg TE, Hefner Y, Olson CA, Phaneuf PV, O'Brien EJ, Sanders JG, Salido RA, Sanders K, Brennan C, Humphrey G, Knight R, Feist AM |
2019 |
| Estimating Metabolic Equilibrium Constants: Progress and Future Challenges |
B. Du; D.C. Zielinski; B.O. Palsson |
2018 |
| Adaptive laboratory evolution resolves energy depletion to maintain high aromatic metabolite phenotypes in Escherichia coli strains lacking the Phosphotransferase System. |
D. McCloskey; S. Xu; T.E. Sandberg; E. Brunk; Y. Hefner; R. Szubin; A.M. Feist; B.O. Palsson |
2018 |
| Modeling the multi-scale mechanisms of macromolecular resource allocation |
L. Yang; J.T. Yurkovich; Z.A. King; B.O. Palsson |
2018 |
| Identification of growth-coupled production strains considering protein costs and kinetic variability |
H.V. Dinh; Z.A. King; B.O. Palsson; A.M. Feist |
2018 |
| Escherichia coli B2 strains prevalent in inflammatory bowel disease patients have distinct metabolic capabilities that enable colonization of intestinal mucosa. |
X. Fang; J.M. Monk; N. Mih; B. Du; A.V. Sastry; E. Kavvas; Y. Seif; L. Smarr; B.O. Palsson |
2018 |
| Functional interrogation of Plasmodium genus metabolism identifies species- and stage-specific differences in nutrient essentiality and drug targeting. |
A.M. Abdel-Haleem; H. Hefzi; K. Mineta; X. Gao; T. Gojobori; B.O. Palsson; N.E. Lewis; N. Jamshidi |
2018 |
| Machine learning and structural analysis of Mycobacterium tuberculosis pan-genome identifies genetic signatures of antibiotic resistance |
E.S. Kavvas; E. Catoiu; N. Mih; J.T. Yurkovich; Y. Seif; N. Dillon; D. Heckmann; A. Anand; L. Yang; V. Nizet; J.M. Monk; B.O. Palsson |
2018 |
| Adaptation to the coupling of glycolysis to toxic methylglyoxal production in tpiA deletion strains of Escherichia coli requires synchronized and counterintuitive genetic changes. |
D. McCloskey; S. Xu; T.E. Sandberg; E. Brunk; Y. Hefner; R. Szubin; A.M. Feist; B.O. Palsson |
2018 |
| Revealing Key Determinants of Clonal Variation in Transgene Expression in Recombinant CHO Cells Using Targeted Genome Editing. |
J.Seong Lee; J.Hyoung Park; T.Kwang Ha; M. Samoudi; N.E. Lewis; B.O. Palsson; H.Faustrup Kildegaard; G.M. Lee |
2018 |
| Characterizing posttranslational modifications in prokaryotic metabolism using a multiscale workflow |
E. Brunk; R.L. Chang; J. Xia; H. Hefzi; J.T. Yurkovich; D. Kim; E. Buckmiller; H.H. Wang; B.K. Cho; C. Yang; B.O. Palsson; G.M. Church; N.E. Lewis |
2018 |
| Temperature-Dependent Estimation of Gibbs Energies Using an Updated Group-Contribution Method. |
B. Du; Z. Zhang; S. Grubner; J.T. Yurkovich; B.O. Palsson; D.C. Zielinski |
2018 |
| Dataset on economic analysis of mass production of algae in LED-based photobioreactors. |
W. Fu; S. Gudmundsson; K. Wichuk; S. Palsson; B.O. Palsson; K. Salehi-Ashtiani; S. Brynjólfsson |
2018 |
| Thermodynamic favorability and pathway yield as evolutionary tradeoffs in biosynthetic pathway choice |
B. Du; D.C. Zielinski; J.M. Monk; B.O. Palsson |
2018 |
| The Staphylococcus aureus Two-Component System AgrAC Displays Four Distinct Genomic Arrangements That Delineate Genomic Virulence Factor Signatures |
K.S. Choudhary; N. Mih; J. Monk; E. Kavvas; J.T. Yurkovich; G. Sakoulas; B.O. Palsson |
2018 |
| Systems analysis of metabolism in platelet concentrates during storage in platelet additive solution. |
F. Johannsson; S. Guðmundsson; G. Paglia; S. Guðmundsson; B. Palsson; O.E. Sigurjónsson; O. Rolfsson |
2018 |
| ChIP-exo interrogation of Crp, DNA, and RNAP holoenzyme interactions. |
H. Latif; S. Federowicz; A. Ebrahim; J. Tarasova; R. Szubin; J. Utrilla; K. Zengler; B.O. Palsson |
2018 |
| Escher-FBA: a web application for interactive flux balance analysis |
E. Rowe; B.O. Palsson; Z.A. King |
2018 |
| High-Level dCas9 Expression Induces Abnormal Cell Morphology in Escherichia coli. |
S. Cho; D. Choe; E. Lee; S.Chang Kim; B. Palsson; B.K. Cho |
2018 |
| Basics of genome-scale metabolic modeling and applications on C1-utilization. |
I. Kabimoldayev; A.Duc Nguyen; L. Yang; S. Park; E.Yeol Lee; D. Kim |
2018 |
| iCN718, an Updated and Improved Genome-Scale Metabolic Network Reconstruction of Acinetobacter baumannii AYE |
C.J. Norsigian; E. Kavvas; Y. Seif; B.O. Palsson; J.M. Monk |
2018 |
| Reframing gene essentiality in terms of adaptive flexibility. |
G.I. Guzman; C.A. Olson; Y. Hefner; P.V. Phaneuf; E. Catoiu; L.B. Crepaldi; L.Goldschmid Micas; B.O. Palsson; A.M. Feist |
2018 |
| Genome-scale metabolic reconstructions of multiple Salmonella strains reveal serovar-specific metabolic traits. |
Y. Seif; E. Kavvas; J.C. Lachance; J.T. Yurkovich; S.P. Nuccio; X. Fang; E. Catoiu; M. Raffatellu; B.O. Palsson; J.M. Monk |
2018 |