A Protocol for the Automatic Construction of Highly Curated Genome-Scale Models of Human Metabolism
- Igor Marin de Mas, Helena Herand, Jorge Carrasco, …, Jorge Carrasco, Lars K Nielsen, Pär I Johansson
- None, 10.3390/bioengineering10050576
Omics data for sampling thermodynamically feasible kinetic models
- Marina de Leeuw, Marta R A Matos, Lars Keld Nielsen, …, Marina de Leeuw, Marta R A Matos, Lars Keld Nielsen
- Metab Eng, 10.1016/j.ymben.2023.05.002
Endothelial Cell Phenotypes Demonstrate Different Metabolic Patterns and Predict Mortality in Trauma Patients
- Hanne H Henriksen, Igor MarÃn de Mas, Lars K Nielsen, …, Óttar Rolfsson, Charles E Wade, Pär I Johansson
- Int J Mol Sci, 10.3390/ijms24032257
GRASP: a computational platform for building kinetic models of cellular metabolism
- Marta R A Matos, Pedro A Saa, Nicholas Cowie, …, Svetlana Volkova, Marina de Leeuw, Lars K Nielsen
- None, 10.1093/bioadv/vbac066
Enhancing CHO cell productivity through a dual selection system using Aspg and Gs in glutamine free medium
- Tae Kwang Ha, Andreu Ã’dena, Karen Julie la Cour Karottki, …, Lars K Nielsen, Lise Marie Grav, Nathan E Lewis
- Biotechnol Bioeng, 10.1002/bit.28318
RNA-seq Sample Preparation Kits Strongly Affect Transcriptome Profiles of a Gas-Fermenting Bacterium
- Lorena Azevedo de Lima, Kristina Reinmets, Lars Keld Nielsen, …, Audrey Harris, Michael Köpke, Kaspar Valgepea
- Microbiol Spectr, 10.1128/spectrum.02303-22
The topology of genome-scale metabolic reconstructions unravels independent modules and high network flexibility
- Verónica S MartÃnez, Pedro A Saa, Jason Jooste, Kanupriya Tiwari, Lake-Ee Quek, Lars K Nielsen
- PLoS Comput Biol, 10.1371/journal.pcbi.1010203
Engineering death resistance in CHO cells for improved perfusion culture
- Michael A MacDonald, Matthias Nöbel, Verónica S MartÃnez, …, Trent Munro, Lars K Nielsen, Esteban Marcellin
- MAbs, 10.1080/19420862.2022.2083465
Recycling carbon for sustainable protein production using gas fermentation
- Esteban Marcellin, Largus T Angenent, Lars K Nielsen, Bastian Molitor
- Curr Opin Biotechnol, 10.1016/j.copbio.2022.102723
Irritable bowel syndrome and microbiome; Switching from conventional diagnosis and therapies to personalized interventions
- Pouyan Ghaffari, Saeed Shoaie, Lars K Nielsen
- J Transl Med, 10.1186/s12967-022-03365-z
Analytical tools for unravelling the metabolism of gas-fermenting Clostridia
- James K Heffernan, Vishnu Mahamkali, Kaspar Valgepea, Esteban Marcellin, Lars K Nielsen
- Curr Opin Biotechnol, 10.1016/j.copbio.2022.102700
Multi-omic characterisation of Streptomyces hygroscopicus NRRL 30439: detailed assessment of its secondary metabolic potential
- Craig P Barry, Rosemary Gillane, Gert H Talbo, …, John Power, Lars K Nielsen, Esteban Marcellin
- Mol Omics, 10.1039/d1mo00150g
Perfusion culture of Chinese Hamster Ovary cells for bioprocessing applications
- Michael A MacDonald, Matthias Nöbel, Dinora Roche Recinos, …, Stephen Mahler, Lars Keld Nielsen, Trent Munro
- Crit Rev Biotechnol, 10.1080/07388551.2021.1998821
Network mapping of primary CD34+ cells by Ampliseq based whole transcriptome targeted resequencing identifies unexplored differentiation regulatory relationships
- Jessica L Schwaber, Darren Korbie, Stacey Andersen, …, Panagiotis K Chrysanthopoulos, Matt Trau, Lars K Nielsen
- PLoS One, 10.1371/journal.pone.0246107
Time-course transcriptomics reveals that amino acids catabolism plays a key role in toxinogenesis and morphology in Clostridium tetani
- Camila A Orellana, Nicolas E Zaragoza, Cuauhtemoc Licona-Cassani, …, John Power, Lars K Nielsen, Esteban Marcellin
- J Ind Microbiol Biotechnol, 10.1007/s10295-020-02330-3
Heterologous Production of 6-Deoxyerythronolide B in Escherichia coli through the Wood Werkman Cycle
- R Axayacatl Gonzalez-Garcia, Lars K Nielsen, Esteban Marcellin
- None, 10.3390/metabo10060228
Redox controls metabolic robustness in the gas-fermenting acetogen Clostridium autoethanogenum
- Vishnuvardhan Mahamkali, Kaspar Valgepea, Renato de Souza Pinto Lemgruber, …, Séan Dennis Simpson, Lars Keld Nielsen, Esteban Marcellin
- Proc Natl Acad Sci U S A, 10.1073/pnas.1919531117
Enhancing CO 2 -Valorization Using Clostridium autoethanogenum for Sustainable Fuel and Chemicals Production
- James K Heffernan, Kaspar Valgepea, Renato de Souza Pinto Lemgruber, …, Michael Köpke, Lars K Nielsen, Esteban Marcellin
- None, 10.3389/fbioe.2020.00204
Adaptation of hydroxymethylbutenyl diphosphate reductase enables volatile isoprenoid production
- Mareike Bongers, Jordi Perez-Gil, Mark P Hodson, …, Morten Oa Sommer, Lars K Nielsen, Claudia E Vickers
- Elife, 10.7554/elife.48685
Correction to: Deletion of the hypothetical protein SCO2127 of Streptomyces coelicolor allowed identification of a new regulator of actinorhodin production
- VÃctor H TierrafrÃa, Cuauhtemoc Licona-Cassani, Nidia Maldonado-Carmona, …, Beatriz Ruiz-Villafán, Lars K Nielsen, Sergio Sánchez
- Appl Microbiol Biotechnol, 10.1007/s00253-020-10499-x
Attenuating apoptosis in Chinese hamster ovary cells for improved biopharmaceutical production
- Matthew N Henry, Michael A MacDonald, Camila A Orellana, …, Esteban Marcellin, Stephen Mahler, Verónica S MartÃnez
- Biotechnol Bioeng, 10.1002/bit.27269
A TetR-Family Protein (CAETHG_0459) Activates Transcription From a New Promoter Motif Associated With Essential Genes for Autotrophic Growth in Acetogens
- Renato de Souza Pinto Lemgruber, Kaspar Valgepea, Ricardo Axayacatl Gonzalez Garcia, …, Séan Dennis Simpson, Lars Keld Nielsen, Esteban Marcellin
- None, 10.3389/fmicb.2019.02549
Stoichiometric gene-to-reaction associations enhance model-driven analysis performance: Metabolic response to chronic exposure to Aldrin in prostate cancer
- Igor MarÃn de Mas, Laura Torrents, Carmen Bedia, Lars K Nielsen, Marta Cascante, Romà Tauler
- BMC Genomics, 10.1186/s12864-019-5979-4
Shedding light: The importance of reverse transcription efficiency standards in data interpretation
- Jessica Schwaber, Stacey Andersen, Lars Nielsen
- None, 10.1016/j.bdq.2018.12.002
Systems-level engineering and characterisation of Clostridium autoethanogenum through heterologous production of poly-3-hydroxybutyrate (PHB)
- Renato de Souza Pinto Lemgruber, Kaspar Valgepea, Ryan Tappel, …, Lars K Nielsen, Michael Köpke, Esteban Marcellin
- Metab Eng, 10.1016/j.ymben.2019.01.003
Linking genotype and phenotype in an economically viable propionic acid biosynthesis process
- Carlos H Luna-Flores, Chris C Stowers, Brad M Cox, Lars K Nielsen, Esteban Marcellin
- None, 10.1186/s13068-018-1222-9
Synthetic microbe communities provide internal reference standards for metagenome sequencing and analysis
- Simon A Hardwick, Wendy Y Chen, Ted Wong, …, Catherine E Lovelock, Brett A Neilan, Tim R Mercer
- Nat Commun, 10.1038/s41467-018-05555-0
Minimizing Clonal Variation during Mammalian Cell Line Engineering for Improved Systems Biology Data Generation
- Lise Marie Grav, Daria Sergeeva, Jae Seong Lee, …, Lars Keld Nielsen, Gyun Min Lee, Helene Faustrup Kildegaard
- ACS Synth Biol, 10.1021/acssynbio.8b00140
From reconstruction to C 4 metabolic engineering: A case study for overproduction of polyhydroxybutyrate in bioenergy grasses
- Cristiana Gomes de Oliveira Dal’Molin, Lake-Ee Quek, Pedro A Saa, Robin Palfreyman, Lars Keld Nielsen
- Plant Sci, 10.1016/j.plantsci.2018.03.027
Improving culture performance and antibody production in CHO cell culture processes by reducing the Warburg effect
- Maria Buchsteiner, Lake-Ee Quek, Peter Gray, Lars K Nielsen
- Biotechnol Bioeng, 10.1002/bit.26724
H 2 drives metabolic rearrangements in gas-fermenting Clostridium autoethanogenum
- Kaspar Valgepea, Renato de Souza Pinto Lemgruber, Tanus Abdalla, …, Séan Dennis Simpson, Lars Keld Nielsen, Esteban Marcellin
- None, 10.1186/s13068-018-1052-9
Advances in analytical tools for high throughput strain engineering
- Esteban Marcellin, Lars Keld Nielsen
- Curr Opin Biotechnol, 10.1016/j.copbio.2018.01.027
Maintenance of ATP Homeostasis Triggers Metabolic Shifts in Gas-Fermenting Acetogens
- Kaspar Valgepea, Renato de Souza Pinto Lemgruber, Kieran Meaghan, …, Séan Dennis Simpson, Lars Keld Nielsen, Esteban Marcellin
- Cell Syst, 10.1016/j.cels.2017.04.008