| Constraint-based analysis of metabolic capacity of Salmonella typhimurium during host-pathogen interaction. |
A. Raghunathan; J.L. Reed; S. Shin; B.Ø. Palsson; S. Daefler |
2009 |
| Metabolic network analysis integrated with transcript verification for sequenced genomes. |
A. Manichaikul; L. Ghamsari; E.F.Y. Hom; C. Lin; R.R. Murray; R.L. Chang; S. Balaji; T. Hao; Y. Shen; A.K. Chavali; I. Thiele; X. Yang; C. Fan; E. Mello; D.E. Hill; M. Vidal; K. Salehi-Ashtiani; J.A. Papin |
2009 |
| Genome-scale network analysis of imprinted human metabolic genes. |
M.I. Sigurdsson; N. Jamshidi; J.J. Jonsson; B.Ø. Palsson |
2009 |
| Three-dimensional structural view of the central metabolic network of Thermotoga maritima. |
Y. Zhang; I. Thiele; D. Weekes; Z. Li; L. Jaroszewski; K. Ginalski; A.M. Deacon; J. Wooley; S.A. Lesley; I.A. Wilson; B.Ø. Palsson; A.L. Osterman; A. Godzik |
2009 |
| Identification of potential pathway mediation targets in Toll-like receptor signaling. |
F. Li; I. Thiele; N. Jamshidi; B.Ø. Palsson |
2009 |
| Metabolic systems biology. |
B.Ø. Palsson |
2009 |
| Genome-scale reconstruction of Escherichia coli's transcriptional and translational machinery: a knowledge base, its mathematical formulation, and its functional characterization. |
I. Thiele; N. Jamshidi; R.M.T. Fleming; B.Ø. Palsson |
2009 |
| Connecting extracellular metabolomic measurements to intracellular flux states in yeast. |
M.L. Mo; B.Ø. Palsson; M.J. Herrgard |
2009 |
| Gene expression profiling and the use of genome-scale in silico models of Escherichia coli for analysis: providing context for content. |
N.E. Lewis; B.K. Cho; E.M. Knight; B.Ø. Palsson |
2009 |
| Using in silico models to simulate dual perturbation experiments: procedure development and interpretation of outcomes. |
N. Jamshidi; B.Ø. Palsson |
2009 |
| Functional states of the genome-scale Escherichia coli transcriptional regulatory system. |
E.P. Gianchandani; A.R. Joyce; B.Ø. Palsson; J.A. Papin |
2009 |
| Probing the basis for genotype-phenotype relationships. |
B.K. Cho; B.Ø. Palsson |
2009 |
| Can the protein occupancy landscape show the topologically isolated chromosomal domains in the E. coli genome?: An exciting prospect. |
B.K. Cho; B.Ø. Palsson |
2009 |
| Flux-concentration duality in dynamic nonequilibrium biological networks. |
N. Jamshidi; B.Ø. Palsson |
2009 |
| Use of randomized sampling for analysis of metabolic networks. |
J. Schellenberger; B.Ø. Palsson |
2009 |
| Whole-genome resequencing of Escherichia coli K-12 MG1655 undergoing short-term laboratory evolution in lactate minimal media reveals flexible selection of adaptive mutations. |
T.M. Conrad; A.R. Joyce; K.M. Applebee; C.L. Barrett; B. Xie; Y. Gao; B.Ø. Palsson |
2009 |
| Aerobic fermentation of D-glucose by an evolved cytochrome oxidase-deficient Escherichia coli strain. |
V.A. Portnoy; M.J. Herrgard; B.Ø. Palsson |
2008 |
| Three factors underlying incorrect in silico predictions of essential metabolic genes. |
S.A. Becker; B.Ø. Palsson |
2008 |
| Genome-scale reconstruction of the Lrp regulatory network in Escherichia coli. |
B.K. Cho; C.L. Barrett; E.M. Knight; Y.S. Park; B.Ø. Palsson |
2008 |
| Formulating genome-scale kinetic models in the post-genome era. |
N. Jamshidi; B.Ø. Palsson |
2008 |
| Genome-wide analysis of Fis binding in Escherichia coli indicates a causative role for A-/AT-tracts. |
B.K. Cho; E.M. Knight; C.L. Barrett; B.Ø. Palsson |
2008 |
| Genomewide identification of protein binding locations using chromatin immunoprecipitation coupled with microarray. |
B.K. Cho; E.M. Knight; B.Ø. Palsson |
2008 |
| Predicting gene essentiality using genome-scale in silico models. |
A.R. Joyce; B.Ø. Palsson |
2008 |
| Context-specific metabolic networks are consistent with experiments. |
S.A. Becker; B.Ø. Palsson |
2008 |
| Impact of individual mutations on increased fitness in adaptively evolved strains of Escherichia coli. |
K.M. Applebee; M.J. Herrgard; B.Ø. Palsson |
2008 |
| The growing scope of applications of genome-scale metabolic reconstructions using Escherichia coli. |
A.M. Feist; B.Ø. Palsson |
2008 |
| Network-based prediction of human tissue-specific metabolism. |
T. Shlomi; M.N. Cabili; M.J. Herrgard; B.Ø. Palsson; E. Ruppin |
2008 |
| Genome-scale reconstruction and in silico analysis of the Clostridium acetobutylicum ATCC 824 metabolic network. |
J. Lee; H. Yun; A.M. Feist; B.Ø. Palsson; S.Y. Lee |
2008 |
| Top-down analysis of temporal hierarchy in biochemical reaction networks. |
N. Jamshidi; B.Ø. Palsson |
2008 |
| A genome-scale metabolic reconstruction of Pseudomonas putida KT2440: iJN746 as a cell factory. |
J. Nogales; B.Ø. Palsson; I. Thiele |
2008 |