| Publication Title | Authors | Publication Year Sort ascending |
|---|---|---|
| Quantitative feature extraction from the Chinese hamster ovary bioprocess bibliome using a novel meta-analysis workflow. | A. Golabgir; J.M. Gutierrez; H. Hefzi; S. Li; B.O. Palsson; C. Herwig; N.E. Lewis |
2016 |
| BiGG Models: A platform for integrating, standardizing and sharing genome-scale models. | Z.A. King; J. Lu; A. Dräger; P. Miller; S. Federowicz; J.A. Lerman; A. Ebrahim; B.O. Palsson; N.E. Lewis |
2016 |
| Systems assessment of transcriptional regulation on central carbon metabolism by Cra and CRP | D. Kim; S.Woo Seo; H. Nam; G.I. Guzman; Y. Gao; B.O. Palsson |
2016 |
| Genome-Scale Model Reveals Metabolic Basis of Biomass Partitioning in a Model Diatom. | J. Levering; J. Broddrick; C.L. Dupont; G. Peers; K. Beeri; J. Mayers; A.A. Gallina; A.E. Allen; B.O. Palsson; K. Zengler |
2016 |
| Unique attributes of cyanobacterial metabolism revealed by improved genome-scale metabolic modeling and essential gene analysis. | J.T. Broddrick; B.E. Rubin; D.G. Welkie; N. Du; N. Mih; S. Diamond; J.J. Lee; S.S. Golden; B.O. Palsson |
2016 |
| Comparative genome-scale modelling of Staphylococcus aureus strains identifies strain-specific metabolic capabilities linked to pathogenicity. | E. Bosi; J.M. Monk; R.K. Aziz; M. Fondi; V. Nizet; B.Ø. Palsson |
2016 |
| Literature mining supports a next-generation modeling approach to predict cellular byproduct secretion. | Z.A. King; E.J. O'Brien; A.M. Feist; B.O. Palsson |
2016 |
| Evaluation of rate law approximations in bottom-up kinetic models of metabolism. | B. Du; D.C. Zielinski; E.S. Kavvas; A. Dräger; J. Tan; Z. Zhang; K.E. Ruggiero; G.A. Arzumanyan; B.O. Palsson |
2016 |
| 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 |
| Systems biology definition of the core proteome of metabolism and expression is consistent with high-throughput data. | L. Yang; J. Tan; E.J. O'Brien; J.M. Monk; D. Kim; H.J. Li; P. Charusanti; A. Ebrahim; C.J. Lloyd; J.T. Yurkovich; B. Du; A. Dräger; A. Thomas; Y. Sun; M.A. Saunders; B.O. Palsson |
2015 |
| Decoding genome-wide GadEWX-transcriptional regulatory networks reveals multifaceted cellular responses to acid stress in Escherichia coli. | S.Woo Seo; D. Kim; E.J. O'Brien; R. Szubin; B.O. Palsson |
2015 |
| Model-driven discovery of underground metabolic functions in Escherichia coli. | G.I. Guzman; J. Utrilla; S. Nurk; E. Brunk; J.M. Monk; A. Ebrahim; B.O. Palsson; A.M. Feist |
2015 |
| A Markov chain model for N-linked protein glycosylation - towards a low-parameter tool for model-driven glycoengineering. | P.N. Spahn; A.H. Hansen; H.G. Hansen; J. Arnsdorf; H.F. Kildegaard; N.E. Lewis |
2015 |
| CONDENSED VERSION--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.Ø. Palsson |
2015 |
| Engineering of oleaginous organisms for lipid production. | J. Levering; J. Broddrick; K. Zengler |
2015 |
| 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 |