DESHARKY: automatic design of metabolic pathways for optimal cell growth G Rodrigo, J Carrera, KJ Prather, A Jaramillo Bioinformatics 24 (21), 2554-2556, 2008 | 131 | 2008 |
Simultaneous cross-evaluation of heterogeneous E. coli datasets via mechanistic simulation DN Macklin, TA Ahn-Horst, H Choi, NA Ruggero, J Carrera, JC Mason, ... Science 369 (6502), eaav3751, 2020 | 128 | 2020 |
An integrative, multi‐scale, genome‐wide model reveals the phenotypic landscape of Escherichia coli J Carrera, R Estrela, J Luo, N Rai, A Tsoukalas, I Tagkopoulos Molecular systems biology 10 (7), 735, 2014 | 100 | 2014 |
Reverse-engineering the Arabidopsis thaliana transcriptional network under changing environmental conditions J Carrera, G Rodrigo, A Jaramillo, SF Elena Genome biology 10, 1-15, 2009 | 93 | 2009 |
Genetdes: automatic design of transcriptional networks G Rodrigo, J Carrera, A Jaramillo Bioinformatics 23 (14), 1857-1858, 2007 | 87 | 2007 |
A Meta-Analysis Reveals the Commonalities and Differences in Arabidopsis thaliana Response to Different Viral Pathogens G Rodrigo, J Carrera, V Ruiz-Ferrer, FJ del Toro, C Llave, O Voinnet, ... PLoS One 7 (7), e40526, 2012 | 83 | 2012 |
Changes in the gene expression profile of Arabidopsis thaliana after infection with Tobacco etch virus P Agudelo-Romero, P Carbonell, F de La Iglesia, J Carrera, G Rodrigo, ... Virology journal 5, 1-11, 2008 | 78 | 2008 |
Why build whole-cell models? J Carrera, MW Covert Trends in cell biology 25 (12), 719-722, 2015 | 73 | 2015 |
Empirical model and in vivo characterization of the bacterial response to synthetic gene expression show that ribosome allocation limits growth rate J Carrera, G Rodrigo, V Singh, B Kirov, A Jaramillo Biotechnology journal 6 (7), 773-783, 2011 | 73 | 2011 |
Computational design of synthetic regulatory networks from a genetic library to characterize the designability of dynamical behaviors G Rodrigo, J Carrera, A Jaramillo Nucleic acids research 39 (20), e138-e138, 2011 | 52 | 2011 |
Asmparts: assembly of biological model parts G Rodrigo, J Carrera, A Jaramillo Systems and synthetic biology 1, 167-170, 2007 | 47 | 2007 |
Model-based redesign of global transcription regulation J Carrera, G Rodrigo, A Jaramillo Nucleic acids research 37 (5), e38-e38, 2009 | 44 | 2009 |
A systems biology approach to the evolution of plant–virus interactions SF Elena, J Carrera, G Rodrigo Current opinion in plant biology 14 (4), 372-377, 2011 | 42 | 2011 |
Optimal viral strategies for bypassing RNA silencing G Rodrigo, J Carrera, A Jaramillo, SF Elena Journal of The Royal Society Interface 8 (55), 257-268, 2011 | 35 | 2011 |
Towards the automated engineering of a synthetic genome J Carrera, G Rodrigo, A Jaramillo Molecular BioSystems 5 (7), 733-743, 2009 | 21 | 2009 |
Pareto optimization in computational protein design with multiple objectives M Suárez, P Tortosa, J Carrera, A Jaramillo Journal of computational chemistry 29 (16), 2704-2711, 2008 | 21 | 2008 |
Computational design of genomic transcriptional networks with adaptation to varying environments J Carrera, SF Elena, A Jaramillo Proceedings of the National Academy of Sciences 109 (38), 15277-15282, 2012 | 19 | 2012 |
Modular model-based design for heterologous bioproduction in bacteria TE Landrain, J Carrera, B Kirov, G Rodrigo, A Jaramillo Current Opinion in Biotechnology 20 (3), 272-279, 2009 | 19 | 2009 |
Perspectives on the automatic design of regulatory systems for synthetic biology G Rodrigo, J Carrera, TE Landrain, A Jaramillo FEBS letters 586 (15), 2037-2042, 2012 | 18 | 2012 |
Network design meets in silico evolutionary biology G Rodrigo, J Carrera, SF Elena Biochimie 92 (7), 746-752, 2010 | 16 | 2010 |