| Publication Title | Authors | Publication Year Sort ascending |
|---|---|---|
| Evolution of Escherichia coli to 42 °C and Subsequent Genetic Engineering Reveals Adaptive Mechanisms and Novel Mutations. | T.E. Sandberg; M. Pedersen; R.A. LaCroix; A. Ebrahim; M. Bonde; M.J. Herrgard; B.O. Palsson; M. Sommer; A.M. Feist |
2014 |
| Effects of abiotic stressors on lutein production in the green microalga Dunaliella salina. | W. Fu; G. Paglia; M. Magnúsdóttir; E.A. Steinarsdóttir; S. Gudmundsson; B.O. Palsson; O.S. Andrésson; S. Brynjólfsson |
2014 |
| Genome-scale reconstruction of the sigma factor network in Escherichia coli: topology and functional states. | B.K. Cho; D. Kim; E.M. Knight; K. Zengler; B.O. Palsson |
2014 |
| Ion Mobility-Derived Collision Cross Section As an Additional Measure for Lipid Fingerprinting and Identification. | G. Paglia; P. Angel; J.P. Williams; K. Richardson; H.J. Olivos; W. Thompson; L. Menikarachchi; S. Lai; C. Walsh; A. Moseley; R.S. Plumb; D.F. Grant; B.O. Palsson; J. Langridge; S. Geromanos; G. Astarita |
2014 |
| Multi-Tissue Computational Modeling Analyzes Pathophysiology of Type 2 Diabetes in MKR Mice. | A. Kumar; T. Harrelson; N.E. Lewis; E.J. Gallagher; D. LeRoith; J. Shiloach; M.J. Betenbaugh |
2014 |
| Network reconstruction of platelet metabolism identifies metabolic signature for aspirin resistance. | A. Thomas; S. Rahmanian; A. Bordbar; B.Ø. Palsson; N. Jamshidi |
2014 |
| Minimal metabolic pathway structure is consistent with associated biomolecular interactions. | A. Bordbar; H. Nagarajan; N.E. Lewis; H. Latif; A. Ebrahim; S. Federowicz; J. Schellenberger; B.O. Palsson |
2014 |
| Constraint-based models predict metabolic and associated cellular functions. | A. Bordbar; J.M. Monk; Z.A. King; B.O. Palsson |
2014 |
| COBRApy: COnstraints-Based Reconstruction and Analysis for Python. | A. Ebrahim; J.A. Lerman; B.O. Palsson; D.R. Hyduke |
2013 |
| Inferring the metabolism of human orphan metabolites from their metabolic network context affirms human gluconokinase activity. | O. Rolfsson; G. Paglia; M. Magnusdóttir; B.Ø. Palsson; I. Thiele |
2013 |
| Characterization and modelling of interspecies electron transfer mechanisms and microbial community dynamics of a syntrophic association. | H. Nagarajan; M. Embree; A.E. Rotaru; P.M. Shrestha; A.M. Feist; B.Ø. Palsson; D.R. Lovley; K. Zengler |
2013 |
| Genomic landscapes of Chinese hamster ovary cell lines as revealed by the Cricetulus griseus draft genome. | N.E. Lewis; X. Liu; Y. Li; H. Nagarajan; G. Yerganian; E. O'Brien; A. Bordbar; A.M. Roth; J. Rosenbloom; C. Bian; M. Xie; W. Chen; N. Li; D. Baycin-Hizal; H. Latif; J. Forster; M.J. Betenbaugh; I. Famili; X. Xu; J. Wang; B.O. Palsson |
2013 |
| Characterizing acetogenic metabolism using a genome-scale metabolic reconstruction of Clostridium ljungdahlii. | H. Nagarajan; M. Sahin; J. Nogales; H. Latif; D.R. Lovley; A. Ebrahim; K. Zengler |
2013 |
| MS/MS networking guided analysis of molecule and gene cluster families. | D.D. Nguyen; C.H. Wu; W.J. Moree; A. Lamsa; M.H. Medema; X. Zhao; R.G. Gavilan; M. Aparicio; L. Atencio; C. Jackson; J. Ballesteros; J. Sanchez; J.D. Watrous; V.V. Phelan; C. Wiel; R.D. Kersten; S. Mehnaz; R. De Mot; E.A. Shank; P. Charusanti; H. Nagarajan; B.M. Duggan; B.S. Moore; N. Bandeira; B.Ø. Palsson; K. Pogliano; M. Gutiérrez; P.C. Dorrestein |
2013 |
| A model-driven quantitative metabolomics analysis of aerobic and anaerobic metabolism in E. coli K-12 MG1655 that is biochemically and thermodynamically consistent. | D. McCloskey; J.A. Gangoiti; Z.A. King; R.K. Naviaux; B.A. Barshop; B.O. Palsson; A.M. Feist |
2013 |
| Structural systems biology evaluation of metabolic thermotolerance in Escherichia coli. | R.L. Chang; K. Andrews; D. Kim; Z. Li; A. Godzik; B.O. Palsson |
2013 |
| Genome-scale metabolic reconstructions of multiple Escherichia coli strains highlight strain-specific adaptations to nutritional environments. | J.M. Monk; P. Charusanti; R.K. Aziz; J.A. Lerman; N. Premyodhin; J.D. Orth; A.M. Feist; B.Ø. Palsson |
2013 |
| Basic and applied uses of genome-scale metabolic network reconstructions of Escherichia coli. | D. McCloskey; B.Ø. Palsson; A.M. Feist |
2013 |
| Systems biology and biotechnology of Streptomyces species for the production of secondary metabolites. | K.S. Hwang; H.U. Kim; P. Charusanti; B.Ø. Palsson; S.Y. Lee |
2013 |
| Studying Salmonellae and Yersiniae host-pathogen interactions using integrated 'omics and modeling. | C. Ansong; B.L. Deatherage; D. Hyduke; B. Schmidt; J.E. McDermott; M.B. Jones; S. Chauhan; P. Charusanti; Y.M. Kim; E.S. Nakayasu; J. Li; A. Kidwai; G. Niemann; R.N. Brown; T.O. Metz; K. McAteer; F. Heffron; S.N. Peterson; V. Motin; B.O. Palsson; R.D. Smith; J.N. Adkins |
2013 |
| GIM3E: condition-specific models of cellular metabolism developed from metabolomics and expression data. | B.J. Schmidt; A. Ebrahim; T.O. Metz; J.N. Adkins; B.Ø. Palsson; D.R. Hyduke |
2013 |
| Characterizing the interplay between multiple levels of organization within bacterial sigma factor regulatory networks. | Y. Qiu; H. Nagarajan; M. Embree; W. Shieu; E. Abate; K. Juárez; B.K. Cho; J.G. Elkins; K.P. Nevin; C.L. Barrett; D.R. Lovley; B.O. Palsson; K. Zengler |
2013 |
| Single-cell genome and metatranscriptome sequencing reveal metabolic interactions of an alkane-degrading methanogenic community. | M. Embree; H. Nagarajan; N. Movahedi; H. Chitsaz; K. Zengler |
2013 |
| Salmonella modulates metabolism during growth under conditions that induce expression of virulence genes. | Y.M. Kim; B.J. Schmidt; A.S. Kidwai; M.B. Jones; B.L. Deatherage Kaiser; H.M. Brewer; H.D. Mitchell; B.O. Palsson; J.E. McDermott; F. Heffron; R.D. Smith; S.N. Peterson; C. Ansong; D.R. Hyduke; T.O. Metz; J.N. Adkins |
2013 |
| Antibacterial mechanisms identified through structural systems pharmacology. | R.L. Chang; L. Xie; P.E. Bourne; B.O. Palsson |
2013 |
| Enhancement of carotenoid biosynthesis in the green microalga Dunaliella salina with light-emitting diodes and adaptive laboratory evolution. | W. Fu; O. Guðmundsson; G. Paglia; G. Herjólfsson; O.S. Andrésson; B.O. Palsson; S. Brynjólfsson |
2013 |
| The development of a fully-integrated immune response model (FIRM) simulator of the immune response through integration of multiple subset models. | S. Palsson; T.P. Hickling; E.L. Bradshaw-Pierce; M. Zager; K. Jooss; P.J.O. Brien; M.E. Spilker; B.O. Palsson; P. Vicini |
2013 |
| A community-driven global reconstruction of human metabolism. | I. Thiele; N. Swainston; R.M.T. Fleming; A. Hoppe; S. Sahoo; M.K. Aurich; H. Haraldsdottir; M.L. Mo; O. Rolfsson; M.D. Stobbe; S.G. Thorleifsson; R. Agren; C. Bölling; S. Bordel; A.K. Chavali; P. Dobson; W.B. Dunn; L. Endler; D. Hala; M. Hucka; D. Hull; D. Jameson; N. Jamshidi; J.J. Jonsson; N. Juty; S. Keating; I. Nookaew; N. Le Novère; N. Malys; A. Mazein; J.A. Papin; N.D. Price; E. Selkov; M.I. Sigurdsson; E. Simeonidis; N. Sonnenschein; K. Smallbone; A. Sorokin; J.H.G.M. Beek; D. Weichart; I. Goryanin; J. Nielsen; H.V. Westerhoff; D.B. Kell; P. Mendes; B.Ø. Palsson |
2013 |
| Genome-scale models of metabolism and gene expression extend and refine growth phenotype prediction. | E.J. O'Brien; J.A. Lerman; R.L. Chang; D.R. Hyduke; B.Ø. Palsson |
2013 |
| Genomically and biochemically accurate metabolic reconstruction of Methanosarcina barkeri Fusaro, iMG746. | M.C. Gonnerman; M.N. Benedict; A.M. Feist; W.W. Metcalf; N.D. Price |
2013 |