Genome‐scale metabolic modeling reveals key features of a minimal gene set

by Jean‐Christophe Lachance, Dominick Matteau, Joëlle Brodeur, Colton J Lloyd, Nathan Mih, Zachary A King, Thomas F Knight, Adam M Feist, Jonathan M Monk, Bernhard O Palsson, Pierre‐Étienne Jacques, Sébastien Rodrigue
Published 2021-07-01

A unified resource for transcriptional regulation in Escherichia coli K-12 incorporating high-throughput-generated binding data into RegulonDB version 10.0

by Alberto Santos-Zavaleta, Mishael Sánchez-Pérez, Heladia Salgado, David A. Velázquez-Ramírez, Socorro Gama-Castro, Víctor H. Tierrafría, Stephen J. W. Busby, Patricia Aquino, Xin Fang, Bernhard O. Palsson, James E. Galagan, Julio Collado-Vides
Published 2018-08-01

Coupling S-adenosylmethionine-dependent methylation to growth: Design and uses.

by Hao Luo, Anne Sofie L Hansen, Lei Yang, Konstantin Schneider, Mette Kristensen, Ulla Christensen, Hanne B Christensen, Bin Du, Emre Özdemir, Adam M Feist, Jay D Keasling, Michael K Jensen, Markus J Herrgård, Bernhard O Palsson
Published 2019-03-01

Enzyme promiscuity shapes adaptation to novel growth substrates

by Gabriela I Guzmán, Troy E Sandberg, Ryan A LaCroix, Ákos Nyerges, Henrietta Papp, Markus de Raad, Zachary A King, Ying Hefner, Trent R Northen, Richard A Notebaart, Csaba Pál, Bernhard O Palsson, Balázs Papp, Adam M Feist
Published 2019-04-01

Genome-scale reconstructions of the mammalian secretory pathway predict metabolic costs and limitations of protein secretion

by Jahir M. Gutierrez, Amir Feizi, Shangzhong Li, Thomas B. Kallehauge, Hooman Hefzi, Lise M. Grav, Daniel Ley, Deniz Baycin Hizal, Michael J. Betenbaugh, Bjorn Voldborg, Helene Faustrup Kildegaard, Gyun Min Lee, Bernhard O. Palsson, Jens Nielsen, Nathan E. Lewis
Published 2020-01-01

Genome-Scale Metabolic Model of Xanthomonas phaseoli pv. manihotis: An Approach to Elucidate Pathogenicity at the Metabolic Level

by David Botero, David Botero, David Botero, David Botero, Jonathan Monk, María Juliana Rodríguez Cubillos, María Juliana Rodríguez Cubillos, Andrés Rodríguez Cubillos, Mariana Restrepo, Vivian Bernal-Galeano, Alejandro Reyes, Alejandro Reyes, Andrés González Barrios, Bernhard Ø. Palsson, Silvia Restrepo, Adriana Bernal
Published 2020-08-01

Multiplex secretome engineering enhances recombinant protein production and purity

by Stefan Kol, Daniel Ley, Tune Wulff, Marianne Decker, Johnny Arnsdorf, Sanne Schoffelen, Anders Holmgaard Hansen, Tanja Lyholm Jensen, Jahir M. Gutierrez, Austin W. T. Chiang, Helen O. Masson, Bernhard O. Palsson, Bjørn G. Voldborg, Lasse Ebdrup Pedersen, Helene Faustrup Kildegaard, Gyun Min Lee, Nathan E. Lewis
Published 2020-04-01

Whole-Genome Sequencing of Invasion-Resistant Cells Identifies Laminin α2 as a Host Factor for Bacterial Invasion

by Xander M. van Wijk, Simon Dohrmann, Bjorn M. Hallstrom, Shangzhong Li, Bjørn G. Voldborg, Brandon X. Meng, Karen K. McKee, Toin H. van Kuppevelt, Peter D. Yurchenco, Bernhard O. Palsson, Nathan E. Lewis, Victor Nizet, Jeffrey D. Esko, Pyong Park, Gerald B. Pier
Published 2017-01-01

Evolution and regulation of nitrogen flux through compartmentalized metabolic networks in a marine diatom

by Sarah R. Smith, Chris L. Dupont, James K. McCarthy, Jared T. Broddrick, Miroslav Oborník, Aleš Horák, Zoltán Füssy, Jaromír Cihlář, Sabrina Kleessen, Hong Zheng, John P. McCrow, Kim K. Hixson, Wagner L. Araújo, Adriano Nunes-Nesi, Alisdair Fernie, Zoran Nikoloski, Bernhard O. Palsson, Andrew E. Allen
Published 2019-10-01

Model-driven discovery of synergistic inhibitors against E. coli and S. enterica serovar Typhimurium targeting a novel synthetic lethal pair, aldA and prpC

by Ramy Karam Aziz, Ramy Karam Aziz, Valerie eKhaw, Jonathan M Monk, Elizabeth eBrunk, Robert eLewis, Suh In Loh, Arti eMishra, Amrita Abhay Nagle, Chitkala eSatyanarayana, Saravanakumar eDhakshinamoorthy, Michele eLuche, Douglas B Kitchen, Kathleen A Andrews, Bernhard O Palsson, Pep eCharusanti, Pep eCharusanti
Published 2015-09-01

Experimentally Validated Reconstruction and Analysis of a Genome-Scale Metabolic Model of an Anaerobic Neocallimastigomycota Fungus

by St. Elmo Wilken, Jonathan M. Monk, Patrick A. Leggieri, Christopher E. Lawson, Thomas S. Lankiewicz, Susanna Seppälä, Chris G. Daum, Jerry Jenkins, Anna M. Lipzen, Stephen J. Mondo, Kerrie W. Barry, Igor V. Grigoriev, John K. Henske, Michael K. Theodorou, Bernhard O. Palsson, Linda R. Petzold, Michelle A. O’Malley
Published 2021-02-01

Blood donor exposome and impact of common drugs on red blood cell metabolism

by Travis Nemkov, Davide Stefanoni, Aarash Bordbar, Aaron Issaian, Bernhard O. Palsson, Larry J. Dumont, Ariel Hay, Anren Song, Yang Xia, Jasmina S. Redzic, Elan Z. Eisenmesser, James C. Zimring, Steve Kleinman, Kirk C. Hansen, Michael P. Busch, Angelo D’Alessandro, the Recipient Epidemiology and Donor Evaluation Study III Red Blood Cell–Omics (REDS-III RBC-Omics) Study
Published 2021-02-01