| Publication Title | Authors | Publication Year Sort ascending |
|---|---|---|
| ChIP-exo interrogation of Crp, DNA, and RNAP holoenzyme interactions | H. Latif; S. Federowicz; A. Ebrahim; J. Tarasova; R. Szubin; J. Utrilla; K. Zengler; B.O. Palsson |
2016 |
| Reliable and efficient solution of genome-scale models of Metabolism and macromolecular Expression. | D. Ma; L. Yang; R.M.T. Fleming; I. Thiele; B.O. Palsson; M.A. Saunders |
2016 |
| 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 |
| 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 |
| solveME: fast and reliable solution of nonlinear ME models. | L. Yang; D. Ma; A. Ebrahim; C.J. Lloyd; M.A. Saunders; B.O. Palsson |
2016 |
| Evolution of E. coli on [U-13C]Glucose Reveals a Negligible Isotopic Influence on Metabolism and Physiology. | T.E. Sandberg; C.P. Long; J.E. Gonzalez; A.M. Feist; M.R. Antoniewicz; B.O. Palsson |
2016 |
| Biomarkers defining the metabolic age of red blood cells during cold storage. | G. Paglia; A. D'Alessandro; O. Rolfsson; O.E. Sigurjónsson; A. Bordbar; S. Palsson; T. Nemkov; K.C. Hansen; S. Gudmundsson; B.O. Palsson |
2016 |
| Systems biology of the structural proteome. | E. Brunk; N. Mih; J. Monk; Z. Zhang; E.J. O'Brien; S.E. Bliven; K. Chen; R.L. Chang; P.E. Bourne; B.O. Palsson |
2016 |
| 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 |