| Decomposing complex reaction networks using random sampling, principal component analysis and basis rotation. |
C.L. Barrett; M.J. Herrgard; B.Ø. Palsson |
2009 |
| Reconstruction of biochemical networks in microorganisms. |
A.M. Feist; M.J. Herrgard; I. Thiele; J.L. Reed; B.Ø. Palsson |
2009 |
| 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 |
| 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 |
| A consensus yeast metabolic network reconstruction obtained from a community approach to systems biology. |
M.J. Herrgard; N. Swainston; P. Dobson; W.B. Dunn; Y.K. Arga; M. Arvas; N. Blüthgen; S. Borger; R. Costenoble; M. Heinemann; M. Hucka; N. Le Novère; P. Li; W. Liebermeister; M.L. Mo; A.P. Oliveira; D. Petranovic; S. Pettifer; E. Simeonidis; K. Smallbone; I. Spasić; D. Weichart; R. Brent; D.S. Broomhead; H.V. Westerhoff; B. Kirdar; M. Penttilä; E. Klipp; B.Ø. Palsson; U. Sauer; S.G. Oliver; P. Mendes; J. Nielsen; D.B. Kell |
2008 |
| 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 |
| 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 |
| Building the power house: recent advances in mitochondrial studies through proteomics and systems biology. |
T.D. Vo; B.Ø. Palsson |
2007 |