| Identification of genome-scale metabolic network models using experimentally measured flux profiles. |
M.J. Herrgard; S. Fong; B.Ø. Palsson |
2006 |
| Long-range periodic patterns in microbial genomes indicate significant multi-scale chromosomal organization. |
T.E. Allen; N.D. Price; A.R. Joyce; B.Ø. Palsson |
2006 |
| Transcriptional regulation of the fad regulon genes of Escherichia coli by ArcA. |
B.K. Cho; E.M. Knight; B.Ø. Palsson |
2006 |
| Towards multidimensional genome annotation. |
J.L. Reed; I. Famili; I. Thiele; B.Ø. Palsson |
2006 |
| Isotopomer analysis of myocardial substrate metabolism: a systems biology approach. |
T.D. Vo; B.Ø. Palsson |
2006 |
| 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 |
| The global transcriptional regulatory network for metabolism in Escherichia coli exhibits few dominant functional states. |
C.L. Barrett; C.D. Herring; J.L. Reed; B.Ø. Palsson |
2005 |
| The econometrics of evolution. |
S. Fong; A.R. Joyce; B.Ø. Palsson |
2005 |
| Candidate metabolic network states in human mitochondria. Impact of diabetes, ischemia, and diet. |
I. Thiele; N.D. Price; T.D. Vo; B.Ø. Palsson |
2005 |
| Properties of metabolic networks: structure versus function. |
R. Mahadevan; B.Ø. Palsson |
2005 |
| Expa: a program for calculating extreme pathways in biochemical reaction networks. |
S.L. Bell; B.Ø. Palsson |
2005 |
| k-Cone analysis: determining all candidate values for kinetic parameters on a network scale. |
I. Famili; R. Mahadevan; B.Ø. Palsson |
2005 |
| Reconstruction of cellular signalling networks and analysis of their properties. |
J.A. Papin; T. Hunter; B.Ø. Palsson; S. Subramaniam |
2005 |