| Publication Title | Authors | Publication Year Sort ascending |
|---|---|---|
| A Consensus Genome-scale Reconstruction of Chinese Hamster Ovary Cell Metabolism. | H. Hefzi; K.Siong Ang; M. Hanscho; A. Bordbar; D. Ruckerbauer; M. Lakshmanan; C.A. Orellana; D. Baycin-Hizal; Y. Huang; D. Ley; V.S. Martinez; S. Kyriakopoulos; N.E. Jiménez; D.C. Zielinski; L.E. Quek; T. Wulff; J. Arnsdorf; S. Li; J.Seong Lee; G. Paglia; N. Loira; P.N. Spahn; L.E. Pedersen; J.M. Gutierrez; Z.A. King; A.Mathilde Lund; H. Nagarajan; A. Thomas; A.M. Abdel-Haleem; J. Zanghellini; H.F. Kildegaard; B.G. Voldborg; Z.P. Gerdtzen; M.J. Betenbaugh; B.O. Palsson; M.R. Andersen; L.K. Nielsen; N. Borth; D.Y. Lee; N.E. Lewis |
2016 |
| What do cells actually want? | A.M. Feist; B.O. Palsson |
2016 |
| The aldehyde dehydrogenase, AldA, is essential for L-1,2-propanediol utilization in laboratory-evolved Escherichia coli | R.K. Aziz; J.M. Monk; K.A. Andrews; J. Nhan; V.J. Khaw; H. Wong; B.O. Palsson; P. Charusanti |
2016 |
| Characterizing Strain Variation in Engineered E. coli Using a Multi-Omics-Based Workflow. | E. Brunk; K.W. George; J. Alonso-Gutierrez; M. Thompson; E. Baidoo; G. Wang; C.J. Petzold; D. McCloskey; J. Monk; L. Yang; E.J. O'Brien; T.S. Batth; H.Garcia Martin; A. Feist; P.D. Adams; J.D. Keasling; B.O. Palsson; T.Soon Lee |
2016 |
| Multi-omic data integration enables discovery of hidden biological regularities. | A. Ebrahim; E. Brunk; J. Tan; E.J. O'Brien; D. Kim; R. Szubin; J.A. Lerman; A. Lechner; A. Sastry; A. Bordbar; A.M. Feist; B.O. Palsson |
2016 |
| Global Rebalancing of Cellular Resources by Pleiotropic Point Mutations Illustrates a Multi-scale Mechanism of Adaptive Evolution. | J. Utrilla; E.J. O'Brien; K. Chen; D. McCloskey; J. Cheung; H. Wang; D. Armenta-Medina; A.M. Feist; B.O. Palsson |
2016 |
| A Phaeodactylum tricornutum literature database for interactive annotation of content | A.A. Gallina; M. Layer; Z.A. King; J. Levering; B.O. Palsson; K. Zengler; G. Peers |
2016 |
| Acidithiobacillus ferrooxidans's comprehensive model driven analysis of the electron transfer metabolism and synthetic strain design for biomining applications | M.A. Campodonico; D. Vaisman; J.F. Castro; V. Razmilic; F. Mercado; B.A. Andrews; A.M. Feist; J.A. Asenjo |
2016 |
| Multi-omics Quantification of Species Variation of Escherichia coli Links Molecular Features with Strain Phenotypes. | J.M. Monk; A. Koza; M.A. Campodonico; D. Machado; J.Miguel Seoane; B.O. Palsson; M.J. Herrgard; A.M. Feist |
2016 |
| A modeling method for increased precision and scope of directly measurable fluxes at a genome-scale. | D. McCloskey; J.D. Young; S. Xu; B.Ø. Palsson; A.M. Feist |
2016 |
| Adaptive Evolution of Thermotoga maritima Reveals Plasticity of the ABC Transporter Network. | H. Latif; M. Sahin; J. Tarasova; Y. Tarasova; V.A. Portnoy; J. Nogales; K. Zengler |
2015 |
| A streamlined ribosome profiling protocol for the characterization of microorganisms. | H. Latif; R. Szubin; J. Tan; E. Brunk; A. Lechner; K. Zengler; B.O. Palsson |
2015 |
| Investigating Moorella thermoacetica metabolism with a genome-scale constraint-based metabolic model. | A. Islam; K. Zengler; E.A. Edwards; R. Mahadevan; G. Stephanopoulos |
2015 |
| JSBML 1.0: providing a smorgasbord of options to encode systems biology models. | N. Rodriguez; A. Thomas; L. Watanabe; I.Y. Vazirabad; V. Kofia; H.F. Gómez; F. Mittag; J. Matthes; J. Rudolph; F. Wrzodek; E. Netz; A. Diamantikos; J. Eichner; R. Keller; C. Wrzodek; S. Fröhlich; N.E. Lewis; C.J. Myers; N. Le Novère; B.Ø. Palsson; M. Hucka; A. Dräger |
2015 |
| Unraveling interactions in microbial communities - from co-cultures to microbiomes. | J. Tan; C. Zuniga; K. Zengler |
2015 |
| Pharmacogenomic and clinical data link non-pharmacokinetic metabolic dysregulation to drug side effect pathogenesis. | D.C. Zielinski; F.V. Filipp; A. Bordbar; K. Jensen; J.W. Smith; M.J. Herrgard; M.L. Mo; B.O. Palsson |
2015 |
| A logical data representation framework for electricity-driven bioproduction processes. | S.A. Patil; S. Gildemyn; D. Pant; K. Zengler; B.E. Logan; K. Rabaey |
2015 |
| Prediction of intracellular metabolic states from extracellular metabolomic data. | M.K. Aurich; G. Paglia; O. Rolfsson; S. Hrafnsdóttir; M. Magnúsdóttir; M.M. Stefaniak; B.Ø. Palsson; R.M.T. Fleming; I. Thiele |
2015 |
| Do genome-scale models need exact solvers or clearer standards? | A. Ebrahim; E. Almaas; E. Bauer; A. Bordbar; A.P. Burgard; R.L. Chang; A. Dräger; I. Famili; A.M. Feist; R.Mt Fleming; S.S. Fong; V. Hatzimanikatis; M.J. Herrgard; A. Holder; M. Hucka; D. Hyduke; N. Jamshidi; S.Y. Lee; N. Le Novère; J.A. Lerman; N.E. Lewis; D. Ma; R. Mahadevan; C. Maranas; H. Nagarajan; A. Navid; J. Nielsen; L.K. Nielsen; J. Nogales; A. Noronha; C. Pal; B.O. Palsson; J.A. Papin; K.R. Patil; N.D. Price; J.L. Reed; M. Saunders; R.S. Senger; N. Sonnenschein; Y. Sun; I. Thiele |
2015 |
| Using Genome-scale Models to Predict Biological Capabilities. | E.J. O'Brien; J.M. Monk; B.O. Palsson |
2015 |
| MID Max: LC-MS/MS Method for Measuring the Precursor and Product Mass Isotopomer Distributions of Metabolic Intermediates and Cofactors for Metabolic Flux Analysis Applications. | D. McCloskey; J.D. Young; S. Xu; B.O. Palsson; A.M. Feist |
2015 |
| Systems biology-guided identification of synthetic lethal gene pairs and its potential use to discover antibiotic combinations | R.K. Aziz; J.M. Monk; R.M. Lewis; S.I. Loh; A. Mishra; A.A. Nagle; C. Satyanarayana; S. Dhakshinamoorthy; M. Luche; D.B. Kitchen; K.A. Andrews; N.L. Fong; H.J. Li; B.O. Palsson; P. Charusanti |
2015 |
| A pH and solvent optimized reverse-phase ion-paring-LC–MS/MS method that leverages multiple scan-types for targeted absolute quantification of intracellular metabolites | D.M. McCloskey; J.A. Gangoiti; B.O. Palsson; A.M. Feist |
2015 |
| Personalized Whole-Cell Kinetic Models of Metabolism for Discovery in Genomics and Pharmacodynamics | A. Bordbar; D. McCloskey; D.C. Zielinski; N. Sonnenschein; N. Jamshidi; B.O. Palsson |
2015 |
| Decoding the jargon of bottom-up metabolic systems biology. | O. Rolfsson; B.O. Palsson |
2015 |
| Networks of energetic and metabolic interactions define dynamics in microbial communities. | M. Embree; J.K. Liu; M.M. Al-Bassam; K. Zengler |
2015 |
| How to set up collaborations between academia and industrial biotech companies. | J.T. Pronk; S.Y. Lee; J. Lievense; J. Pierce; B. Palsson; M. Uhlen; J. Nielsen |
2015 |
| Optimizing eukaryotic cell hosts for protein production through systems biotechnology and genome-scale modeling. | J.M. Gutierrez; N.E. Lewis |
2015 |
| SBMLsqueezer 2: context-sensitive creation of kinetic equations in biochemical networks. | A. Dräger; D.C. Zielinski; R. Keller; M. Rall; J. Eichner; B.O. Palsson; A. Zell |
2015 |
| The architecture of ArgR-DNA complexes at the genome-scale in Escherichia coli. | S. Cho; Y.B. Cho; T.Jin Kang; S.Chang Kim; B. Palsson; B.K. Cho |
2015 |