| Metabolic reconstruction and modeling of nitrogen fixation in Rhizobium etli. |
O. Resendis-Antonio; J.L. Reed; S. Encarnación; J. Collado-Vides; B.Ø. Palsson |
2007 |
| Toward whole cell modeling and simulation: comprehensive functional genomics through the constraint-based approach. |
A.R. Joyce; B.Ø. Palsson |
2007 |
| Global reconstruction of the human metabolic network based on genomic and bibliomic data. |
N.C. Duarte; S.A. Becker; N. Jamshidi; I. Thiele; M.L. Mo; T.D. Vo; R. Srivas; B.Ø. Palsson |
2007 |
| Systems analysis of energy metabolism elucidates the affected respiratory chain complex in Leigh's syndrome. |
T.D. Vo; W.N. Paul Lee; B.Ø. Palsson |
2007 |
| Quantitative prediction of cellular metabolism with constraint-based models: the COBRA Toolbox. |
S.A. Becker; A.M. Feist; M.L. Mo; G. Hannum; B.Ø. Palsson; M.J. Herrgard |
2007 |
| Crystal structure of a hyperactive Escherichia coli glycerol kinase mutant Gly230 --> Asp obtained using microfluidic crystallization devices. |
M.J. Anderson; B. DeLabarre; A. Raghunathan; B.Ø. Palsson; A.T. Brunger; S.R. Quake |
2007 |
| Metabolic characterization of Escherichia coli strains adapted to growth on lactate. |
Q. Hua; A.R. Joyce; B.Ø. Palsson; S. Fong |
2007 |
| Investigating the metabolic capabilities of Mycobacterium tuberculosis H37Rv using the in silico strain iNJ661 and proposing alternative drug targets. |
N. Jamshidi; B.Ø. Palsson |
2007 |
| In silico analysis of SNPs and other high-throughput data. |
N. Jamshidi; T.D. Vo; B.Ø. Palsson |
2007 |
| Genome-scale reconstruction of metabolic network in Bacillus subtilis based on high-throughput phenotyping and gene essentiality data. |
Y.K. Oh; B.Ø. Palsson; S.M. Park; C.H. Schilling; R. Mahadevan |
2007 |
| A genome-scale metabolic reconstruction for Escherichia coli K-12 MG1655 that accounts for 1260 ORFs and thermodynamic information. |
A.M. Feist; C.S. Henry; J.L. Reed; M. Krummenacker; A.R. Joyce; P.D. Karp; L.J. Broadbelt; V. Hatzimanikatis; B.Ø. Palsson |
2007 |
| PCR-based tandem epitope tagging system for Escherichia coli genome engineering. |
B.K. Cho; E.M. Knight; B.Ø. Palsson |
2006 |
| Characterization of metabolism in the Fe(III)-reducing organism Geobacter sulfurreducens by constraint-based modeling. |
R. Mahadevan; D.R. Bond; J.E. Butler; A. Esteve-Nuñez; M.V. Coppi; B.Ø. Palsson; C.H. Schilling; D.R. Lovley |
2006 |
| Matrix formalism to describe functional states of transcriptional regulatory systems. |
E.P. Gianchandani; J.A. Papin; N.D. Price; A.R. Joyce; B.Ø. Palsson |
2006 |
| The model organism as a system: integrating 'omics' data sets. |
A.R. Joyce; B.Ø. Palsson |
2006 |
| Systems biology as a foundation for genome-scale synthetic biology. |
C.L. Barrett; T.Y. Kim; H.U. Kim; B.Ø. Palsson; S.Y. Lee |
2006 |
| Metabolite coupling in genome-scale metabolic networks. |
S.A. Becker; N.D. Price; B.Ø. Palsson |
2006 |
| Experimental and computational assessment of conditionally essential genes in Escherichia coli. |
A.R. Joyce; J.L. Reed; A. White; R. Edwards; A.L. Osterman; T. Baba; H. Mori; S.A. Lesely; B.Ø. Palsson; S. Agarwalla |
2006 |
| Optoinjection for efficient targeted delivery of a broad range of compounds and macromolecules into diverse cell types. |
I.B. Clark; E.G. Hanania; J. Stevens; M. Gallina; A. Fieck; R. Brandes; B.Ø. Palsson; M.R. Koller |
2006 |
| Comparative genome sequencing of Escherichia coli allows observation of bacterial evolution on a laboratory timescale. |
C.D. Herring; A. Raghunathan; C. Honisch; T. Patel; K.M. Applebee; A.R. Joyce; T.J. Albert; F.R. Blattner; D. Boom; C.R. Cantor; B.Ø. Palsson |
2006 |
| Network-level analysis of metabolic regulation in the human red blood cell using random sampling and singular value decomposition. |
C.L. Barrett; N.D. Price; B.Ø. Palsson |
2006 |
| Systems approach to refining genome annotation. |
J.L. Reed; T.R. Patel; K.H. Chen; A.R. Joyce; K.M. Applebee; C.D. Herring; O.T. Bui; E.M. Knight; S. Fong; B.Ø. Palsson |
2006 |
| Systems biology of the human red blood cell. |
N. Jamshidi; B.Ø. Palsson |
2006 |
| Candidate states of Helicobacter pylori's genome-scale metabolic network upon application of "loop law" thermodynamic constraints. |
N.D. Price; I. Thiele; B.Ø. Palsson |
2006 |
| Integrated analysis of regulatory and metabolic networks reveals novel regulatory mechanisms in Saccharomyces cerevisiae. |
M.J. Herrgard; B.S. Lee; V.A. Portnoy; B.Ø. Palsson |
2006 |
| Iterative reconstruction of transcriptional regulatory networks: an algorithmic approach. |
C.L. Barrett; B.Ø. Palsson |
2006 |
| Modeling methanogenesis with a genome-scale metabolic reconstruction of Methanosarcina barkeri. |
A.M. Feist; J.C.M. Scholten; B.Ø. Palsson; F.J. Brockman; T. Ideker |
2006 |
| Latent pathway activation and increased pathway capacity enable Escherichia coli adaptation to loss of key metabolic enzymes. |
S. Fong; A. Nanchen; B.Ø. Palsson; U. Sauer |
2006 |
| Metabolic analysis of adaptive evolution for in silico-designed lactate-producing strains. |
Q. Hua; A.R. Joyce; S. Fong; B.Ø. Palsson |
2006 |
| Systems biology of SNPs. |
N. Jamshidi; B.Ø. Palsson |
2006 |