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Jump to: AXA Group. Research Fund | Actions Thématiques Incitatives de Genopole | Actions Thématiques Incitatives de Genopole (ATIGE) | Alfred Kordelinin säätiö [Alfred Kordelin Foundation] | Biotechnology and Biological Sciences Research Council (Great Britain) (BBSRC) | Columbia University | Ecole Polytechnique | Engineering and Physical Sciences Research Council (EPSRC) | European Commission (EC) | European Molecular Biology Organization (EMBO) | European Molecular Biology Organization (EMBO) | European Regional Development Fund (ERDF) | Fondation pour la Recherche Medicale | Fondation pour la recherche médicale | Fondation pour la recherche médicale | Fondation pour la recherche médicale (FRM) | Genoma España | Genopole (Firm) | HPC-Europa programme | Horizon 2020 (European Commission) (H2020) | Knut and Alice Wallenberg Foundation | Marie Curie Actions | Marie Curie Fellowship Association (MCFA) | Merck Research Laboratories | Santa Fe Institute (Santa Fe, N.M.) | Seventh Framework Programme (European Commission) (FP7) | Sixth Framework Programme (European Commission) (FP6) | Spain. Generalitat Valenciana [Valencian Government] | Spain. Ministerio de Ciencia e Innovación | Spain. Ministerio de Ciencia e Innovación (MICINN) | Spain. Ministerio de Economía y Competitividad [Ministry of Economy and Competitiveness] (MINECO) | Spain. Ministerio de Educación y Ciencia (MEC) | Suomen Akatemia [Academy of Finland] | Sweden. Energimyndigheten [Swedish Energy Agency] | United States. Air Force. Office of Scientific Research (AFOSR) | Universidad Autónoma de Barcelona (UAdB) | Université Paris-Sud | University of Warwick. School of Life Sciences | Wellcome Trust (London, England)
Number of items: 84.
AXA Group. Research Fund
Shen, Shensi, Rodrigo, Guillermo, Prakash, Satya, Majer, Eszter, Landrain, Thomas E., Kiro, Boris, Daros, Jose-Antonio and Jaramillo, Alfonso (2015) Dynamic signal processing by ribozyme-mediated RNA circuits to control gene expression. Nucleic Acids Research, 43 (10). pp. 5158-5170. doi:10.1093/nar/gkv287 ISSN 0305-1048.
Rodrigo, Guillermo, Landrain, Thomas E., Majer, Eszter, Daròs, José-Antonio and Jaramillo, Alfonso (2013) Full design automation of multi-state RNA devices to program gene expression using energy-based optimization. PLoS Computational Biology, 9 (8). pp. 1-11. e1003172. doi:10.1371/journal.pcbi.1003172 ISSN 1553-7358.
Actions Thématiques Incitatives de Genopole
Rodrigo, Guillermo, Landrain, T. E. and Jaramillo, Alfonso (2012) De novo automated design of small RNA circuits for engineering synthetic riboregulation in living cells. Proceedings of the National Academy of Sciences of the United States of America, 109 (38). pp. 15271-15276. doi:10.1073/pnas.1203831109 ISSN 0027-8424.
Actions Thématiques Incitatives de Genopole (ATIGE)
Carrera, Javier, Elena, Santiago F. and Jaramillo, Alfonso (2012) Computational design of genomic transcriptional networks with adaptation to varying environments. Proceedings of the National Academy of Sciences of the United States of America, 109 (38). pp. 15277-82. doi:10.1073/pnas.1200030109 ISSN 0027-8424.
Rodrigo, Guillermo, Carrera, Javier, Landrain, Thomas E. and Jaramillo, Alfonso (2012) Perspectives on the automatic design of regulatory systems for synthetic biology. FEBS Letters, 586 (15). pp. 2037-2042. doi:10.1016/j.febslet.2012.02.031 ISSN 0014-5793.
Papin, Jason A., Carrera, Javier, Fernández del Carmen, Asun, Fernández-Muñoz, Rafael, Rambla, Jose Luis, Pons, Clara, Jaramillo, Alfonso, Elena, Santiago F. and Granell, Antonio (2012) Fine-tuning tomato agronomic properties by computational genome redesign. PLoS Computational Biology, 8 (6). e1002528. doi:10.1371/journal.pcbi.1002528 ISSN 1553-7358.
Alfred Kordelinin säätiö [Alfred Kordelin Foundation]
Glykys, Doris J., Szilvay, Géza R., Tortosa, Pablo, Suárez Diez, María, Jaramillo, Alfonso and Banta, Scott (2011) Pushing the limits of automatic computational protein design : design, expression, and characterization of a large synthetic protein based on a fungal laccase scaffold. Systems and synthetic biology, 5 (1-2). pp. 45-58. doi:10.1007/s11693-011-9080-9 ISSN 1872-5325.
Biotechnology and Biological Sciences Research Council (Great Britain) (BBSRC)
Rodrigo, Guillermo, Prakash, Satya, Shen, Shensi, Majer, Eszter, Daròs, José-Antonio and Jaramillo, Alfonso (2017) Model-based design of RNA hybridization networks implemented in living cells. Nucleic Acids Research, 45 (16). pp. 9797-9808. doi:10.1093/nar/gkx698 ISSN 0305-1048.
Brodel, Andreas K., Jaramillo, Alfonso and Isalan, Mark (2017) Intracellular directed evolution of proteins from combinatorial libraries based on conditional phage replication. Nature Protocols, 12 (9). pp. 1830-1843. doi:10.1038/nprot.2017.084 ISSN 1750-2799.
Sagona, Antonia P., Grigonyte, Aurelija M., MacDonald, Paul and Jaramillo, Alfonso (2016) Genetically modified bacteriophages. Integrative Biology, 8 . pp. 465-474. doi:10.1039/c5ib00267b ISSN 1757-9694.
Kushwaha, Manish, Rostain, William, Prakash, Satya, Duncan, John and Jaramillo, Alfonso (2016) Using RNA as molecular code for programming cellular function. ACS Synthetic Biology, 5 (8). pp. 795-809. doi:10.1021/acssynbio.5b00297 ISSN 2161-5063.
Columbia University
Glykys, Doris J., Szilvay, Géza R., Tortosa, Pablo, Suárez Diez, María, Jaramillo, Alfonso and Banta, Scott (2011) Pushing the limits of automatic computational protein design : design, expression, and characterization of a large synthetic protein based on a fungal laccase scaffold. Systems and synthetic biology, 5 (1-2). pp. 45-58. doi:10.1007/s11693-011-9080-9 ISSN 1872-5325.
Ecole Polytechnique
Glykys, Doris J., Szilvay, Géza R., Tortosa, Pablo, Suárez Diez, María, Jaramillo, Alfonso and Banta, Scott (2011) Pushing the limits of automatic computational protein design : design, expression, and characterization of a large synthetic protein based on a fungal laccase scaffold. Systems and synthetic biology, 5 (1-2). pp. 45-58. doi:10.1007/s11693-011-9080-9 ISSN 1872-5325.
Engineering and Physical Sciences Research Council (EPSRC)
Rodrigo, Guillermo, Prakash, Satya, Shen, Shensi, Majer, Eszter, Daròs, José-Antonio and Jaramillo, Alfonso (2017) Model-based design of RNA hybridization networks implemented in living cells. Nucleic Acids Research, 45 (16). pp. 9797-9808. doi:10.1093/nar/gkx698 ISSN 0305-1048.
Brodel, Andreas K., Jaramillo, Alfonso and Isalan, Mark (2017) Intracellular directed evolution of proteins from combinatorial libraries based on conditional phage replication. Nature Protocols, 12 (9). pp. 1830-1843. doi:10.1038/nprot.2017.084 ISSN 1750-2799.
Sagona, Antonia P., Grigonyte, Aurelija M., MacDonald, Paul and Jaramillo, Alfonso (2016) Genetically modified bacteriophages. Integrative Biology, 8 . pp. 465-474. doi:10.1039/c5ib00267b ISSN 1757-9694.
Kushwaha, Manish, Rostain, William, Prakash, Satya, Duncan, John and Jaramillo, Alfonso (2016) Using RNA as molecular code for programming cellular function. ACS Synthetic Biology, 5 (8). pp. 795-809. doi:10.1021/acssynbio.5b00297 ISSN 2161-5063.
European Commission (EC)
Kushwaha, Manish, Rostain, William, Prakash, Satya, Duncan, John and Jaramillo, Alfonso (2016) Using RNA as molecular code for programming cellular function. ACS Synthetic Biology, 5 (8). pp. 795-809. doi:10.1021/acssynbio.5b00297 ISSN 2161-5063.
European Molecular Biology Organization (EMBO)
Rodrigo, G., Carrera, J., Jaramillo, Alfonso and Elena, S. F. (2010) Optimal viral strategies for bypassing RNA silencing. Journal of The Royal Society Interface, 8 (55). pp. 257-268. doi:10.1098/rsif.2010.0264 ISSN 1742-5689.
European Molecular Biology Organization (EMBO)
Rodrigo, Guillermo, Kirov, Boris, Shen, Shensi and Jaramillo, Alfonso (2013) Theoretical and experimental analysis of the forced LacI-AraC oscillator with a minimal gene regulatory model. Chaos: An Interdisciplinary Journal of Nonlinear Science, 23 (2). pp. 1-9. 025109. doi:10.1063/1.4809786 ISSN 1054-1500.
European Regional Development Fund (ERDF)
Rodrigo, G., Carrera, J. and Jaramillo, Alfonso (2011) Computational design of synthetic regulatory networks from a genetic library to characterize the designability of dynamical behaviors. Nucleic Acids Research, 39 (20). e138. doi:10.1093/nar/gkr616 ISSN 0305-1048.
Rodrigo, G., Carrera, J., Jaramillo, Alfonso and Elena, S. F. (2010) Optimal viral strategies for bypassing RNA silencing. Journal of The Royal Society Interface, 8 (55). pp. 257-268. doi:10.1098/rsif.2010.0264 ISSN 1742-5689.
Fondation pour la Recherche Medicale
Carrera, Javier, Elena, Santiago F. and Jaramillo, Alfonso (2012) Computational design of genomic transcriptional networks with adaptation to varying environments. Proceedings of the National Academy of Sciences of the United States of America, 109 (38). pp. 15277-82. doi:10.1073/pnas.1200030109 ISSN 0027-8424.
Rodrigo, Guillermo, Carrera, Javier, Landrain, Thomas E. and Jaramillo, Alfonso (2012) Perspectives on the automatic design of regulatory systems for synthetic biology. FEBS Letters, 586 (15). pp. 2037-2042. doi:10.1016/j.febslet.2012.02.031 ISSN 0014-5793.
Papin, Jason A., Carrera, Javier, Fernández del Carmen, Asun, Fernández-Muñoz, Rafael, Rambla, Jose Luis, Pons, Clara, Jaramillo, Alfonso, Elena, Santiago F. and Granell, Antonio (2012) Fine-tuning tomato agronomic properties by computational genome redesign. PLoS Computational Biology, 8 (6). e1002528. doi:10.1371/journal.pcbi.1002528 ISSN 1553-7358.
Rodrigo, Guillermo, Landrain, T. E. and Jaramillo, Alfonso (2012) De novo automated design of small RNA circuits for engineering synthetic riboregulation in living cells. Proceedings of the National Academy of Sciences of the United States of America, 109 (38). pp. 15271-15276. doi:10.1073/pnas.1203831109 ISSN 0027-8424.
Fondation pour la recherche médicale
Carrera, Javier, Rodrigo, Guillermo, Singh, Vijai, Kirov, Boris and Jaramillo, Alfonso (2011) Empirical model and in vivo characterization of the bacterial response to synthetic gene expression show that ribosome allocation limits growth rate. Biotechnology Journal, 6 (7). pp. 773-783. doi:10.1002/biot.201100084 ISSN 1860-6768.
Camsund, Daniel, Lindblad, Peter and Jaramillo, Alfonso (2011) Genetically engineered light sensors for control of bacterial gene expression. Biotechnology Journal, 6 (7). pp. 826-836. doi:10.1002/biot.201100091 ISSN 1860-6768.
Glykys, Doris J., Szilvay, Géza R., Tortosa, Pablo, Suárez Diez, María, Jaramillo, Alfonso and Banta, Scott (2011) Pushing the limits of automatic computational protein design : design, expression, and characterization of a large synthetic protein based on a fungal laccase scaffold. Systems and synthetic biology, 5 (1-2). pp. 45-58. doi:10.1007/s11693-011-9080-9 ISSN 1872-5325.
Fondation pour la recherche médicale
Rodrigo, Guillermo, Kirov, Boris, Shen, Shensi and Jaramillo, Alfonso (2013) Theoretical and experimental analysis of the forced LacI-AraC oscillator with a minimal gene regulatory model. Chaos: An Interdisciplinary Journal of Nonlinear Science, 23 (2). pp. 1-9. 025109. doi:10.1063/1.4809786 ISSN 1054-1500.
Fondation pour la recherche médicale (FRM)
Rodrigo, G., Carrera, J., Jaramillo, Alfonso and Elena, S. F. (2010) Optimal viral strategies for bypassing RNA silencing. Journal of The Royal Society Interface, 8 (55). pp. 257-268. doi:10.1098/rsif.2010.0264 ISSN 1742-5689.
Genoma España
Papin, Jason A., Carrera, Javier, Fernández del Carmen, Asun, Fernández-Muñoz, Rafael, Rambla, Jose Luis, Pons, Clara, Jaramillo, Alfonso, Elena, Santiago F. and Granell, Antonio (2012) Fine-tuning tomato agronomic properties by computational genome redesign. PLoS Computational Biology, 8 (6). e1002528. doi:10.1371/journal.pcbi.1002528 ISSN 1553-7358.
Genopole (Firm)
Rodrigo, Guillermo, Jaramillo, Alfonso and Blázquez, Miguel A. (2011) Integral control of plant gravitropism through the interplay of hormone signaling and gene regulation. Biophysical Journal, 101 (4). pp. 757-763. doi:10.1016/j.bpj.2011.06.047 ISSN 0006-3495.
Carrera, Javier, Rodrigo, Guillermo, Singh, Vijai, Kirov, Boris and Jaramillo, Alfonso (2011) Empirical model and in vivo characterization of the bacterial response to synthetic gene expression show that ribosome allocation limits growth rate. Biotechnology Journal, 6 (7). pp. 773-783. doi:10.1002/biot.201100084 ISSN 1860-6768.
Camsund, Daniel, Lindblad, Peter and Jaramillo, Alfonso (2011) Genetically engineered light sensors for control of bacterial gene expression. Biotechnology Journal, 6 (7). pp. 826-836. doi:10.1002/biot.201100091 ISSN 1860-6768.
Glykys, Doris J., Szilvay, Géza R., Tortosa, Pablo, Suárez Diez, María, Jaramillo, Alfonso and Banta, Scott (2011) Pushing the limits of automatic computational protein design : design, expression, and characterization of a large synthetic protein based on a fungal laccase scaffold. Systems and synthetic biology, 5 (1-2). pp. 45-58. doi:10.1007/s11693-011-9080-9 ISSN 1872-5325.
Rodrigo, G., Carrera, J. and Jaramillo, Alfonso (2011) Computational design of synthetic regulatory networks from a genetic library to characterize the designability of dynamical behaviors. Nucleic Acids Research, 39 (20). e138. doi:10.1093/nar/gkr616 ISSN 0305-1048.
HPC-Europa programme
Glykys, Doris J., Szilvay, Géza R., Tortosa, Pablo, Suárez Diez, María, Jaramillo, Alfonso and Banta, Scott (2011) Pushing the limits of automatic computational protein design : design, expression, and characterization of a large synthetic protein based on a fungal laccase scaffold. Systems and synthetic biology, 5 (1-2). pp. 45-58. doi:10.1007/s11693-011-9080-9 ISSN 1872-5325.
Rodrigo, G., Carrera, J., Jaramillo, Alfonso and Elena, S. F. (2010) Optimal viral strategies for bypassing RNA silencing. Journal of The Royal Society Interface, 8 (55). pp. 257-268. doi:10.1098/rsif.2010.0264 ISSN 1742-5689.
Horizon 2020 (European Commission) (H2020)
Rodrigo, Guillermo, Prakash, Satya, Shen, Shensi, Majer, Eszter, Daròs, José-Antonio and Jaramillo, Alfonso (2017) Model-based design of RNA hybridization networks implemented in living cells. Nucleic Acids Research, 45 (16). pp. 9797-9808. doi:10.1093/nar/gkx698 ISSN 0305-1048.
Brodel, Andreas K., Jaramillo, Alfonso and Isalan, Mark (2017) Intracellular directed evolution of proteins from combinatorial libraries based on conditional phage replication. Nature Protocols, 12 (9). pp. 1830-1843. doi:10.1038/nprot.2017.084 ISSN 1750-2799.
Rodrigo, G., Carrera, J. and Jaramillo, Alfonso (2011) Computational design of synthetic regulatory networks from a genetic library to characterize the designability of dynamical behaviors. Nucleic Acids Research, 39 (20). e138. doi:10.1093/nar/gkr616 ISSN 0305-1048.
Knut and Alice Wallenberg Foundation
Camsund, Daniel, Lindblad, Peter and Jaramillo, Alfonso (2011) Genetically engineered light sensors for control of bacterial gene expression. Biotechnology Journal, 6 (7). pp. 826-836. doi:10.1002/biot.201100091 ISSN 1860-6768.
Marie Curie Actions
Rodrigo, Guillermo, Landrain, Thomas E., Majer, Eszter, Daròs, José-Antonio and Jaramillo, Alfonso (2013) Full design automation of multi-state RNA devices to program gene expression using energy-based optimization. PLoS Computational Biology, 9 (8). pp. 1-11. e1003172. doi:10.1371/journal.pcbi.1003172 ISSN 1553-7358.
Marie Curie Fellowship Association (MCFA)
Shen, Shensi, Rodrigo, Guillermo, Prakash, Satya, Majer, Eszter, Landrain, Thomas E., Kiro, Boris, Daros, Jose-Antonio and Jaramillo, Alfonso (2015) Dynamic signal processing by ribozyme-mediated RNA circuits to control gene expression. Nucleic Acids Research, 43 (10). pp. 5158-5170. doi:10.1093/nar/gkv287 ISSN 0305-1048.
Merck Research Laboratories
Glykys, Doris J., Szilvay, Géza R., Tortosa, Pablo, Suárez Diez, María, Jaramillo, Alfonso and Banta, Scott (2011) Pushing the limits of automatic computational protein design : design, expression, and characterization of a large synthetic protein based on a fungal laccase scaffold. Systems and synthetic biology, 5 (1-2). pp. 45-58. doi:10.1007/s11693-011-9080-9 ISSN 1872-5325.
Santa Fe Institute (Santa Fe, N.M.)
Rodrigo, G., Carrera, J., Jaramillo, Alfonso and Elena, S. F. (2010) Optimal viral strategies for bypassing RNA silencing. Journal of The Royal Society Interface, 8 (55). pp. 257-268. doi:10.1098/rsif.2010.0264 ISSN 1742-5689.
Seventh Framework Programme (European Commission) (FP7)
Rodrigo, Guillermo, Prakash, Satya, Shen, Shensi, Majer, Eszter, Daròs, José-Antonio and Jaramillo, Alfonso (2017) Model-based design of RNA hybridization networks implemented in living cells. Nucleic Acids Research, 45 (16). pp. 9797-9808. doi:10.1093/nar/gkx698 ISSN 0305-1048.
Brodel, Andreas K., Jaramillo, Alfonso and Isalan, Mark (2017) Intracellular directed evolution of proteins from combinatorial libraries based on conditional phage replication. Nature Protocols, 12 (9). pp. 1830-1843. doi:10.1038/nprot.2017.084 ISSN 1750-2799.
Brodel, Andreas K., Jaramillo, Alfonso and Isalan, Mark (2016) Engineering orthogonal dual transcription factors for multi-input synthetic promoters. Nature Communications, 7 . 13858 . doi:10.1038/ncomms13858 ISSN 2041-1723.
Sagona, Antonia P., Grigonyte, Aurelija M., MacDonald, Paul and Jaramillo, Alfonso (2016) Genetically modified bacteriophages. Integrative Biology, 8 . pp. 465-474. doi:10.1039/c5ib00267b ISSN 1757-9694.
Shen, Shensi, Rodrigo, Guillermo, Prakash, Satya, Majer, Eszter, Landrain, Thomas E., Kiro, Boris, Daros, Jose-Antonio and Jaramillo, Alfonso (2015) Dynamic signal processing by ribozyme-mediated RNA circuits to control gene expression. Nucleic Acids Research, 43 (10). pp. 5158-5170. doi:10.1093/nar/gkv287 ISSN 0305-1048.
Rodrigo, Guillermo, Landrain, Thomas E., Majer, Eszter, Daròs, José-Antonio and Jaramillo, Alfonso (2013) Full design automation of multi-state RNA devices to program gene expression using energy-based optimization. PLoS Computational Biology, 9 (8). pp. 1-11. e1003172. doi:10.1371/journal.pcbi.1003172 ISSN 1553-7358.
Rodrigo, Guillermo, Kirov, Boris, Shen, Shensi and Jaramillo, Alfonso (2013) Theoretical and experimental analysis of the forced LacI-AraC oscillator with a minimal gene regulatory model. Chaos: An Interdisciplinary Journal of Nonlinear Science, 23 (2). pp. 1-9. 025109. doi:10.1063/1.4809786 ISSN 1054-1500.
Rodrigo, Guillermo and Jaramillo, Alfonso (2013) AutoBioCAD : full biodesign automation of genetic circuits. ACS Synthetic Biology, 2 (5). pp. 230-236. doi:10.1021/sb300084h ISSN 2161-5063.
Carrera, Javier and Jaramillo, Alfonso (2013) Automated design of bacterial genome sequences. BMC Systems Biology, Volume 7 (Number 1). Article number 108. doi:10.1186/1752-0509-7-108 ISSN 1752-0509.
Carrera, Javier, Rodrigo, Guillermo, Singh, Vijai, Kirov, Boris and Jaramillo, Alfonso (2011) Empirical model and in vivo characterization of the bacterial response to synthetic gene expression show that ribosome allocation limits growth rate. Biotechnology Journal, 6 (7). pp. 773-783. doi:10.1002/biot.201100084 ISSN 1860-6768.
Camsund, Daniel, Lindblad, Peter and Jaramillo, Alfonso (2011) Genetically engineered light sensors for control of bacterial gene expression. Biotechnology Journal, 6 (7). pp. 826-836. doi:10.1002/biot.201100091 ISSN 1860-6768.
Glykys, Doris J., Szilvay, Géza R., Tortosa, Pablo, Suárez Diez, María, Jaramillo, Alfonso and Banta, Scott (2011) Pushing the limits of automatic computational protein design : design, expression, and characterization of a large synthetic protein based on a fungal laccase scaffold. Systems and synthetic biology, 5 (1-2). pp. 45-58. doi:10.1007/s11693-011-9080-9 ISSN 1872-5325.
Rodrigo, G., Carrera, J. and Jaramillo, Alfonso (2011) Computational design of synthetic regulatory networks from a genetic library to characterize the designability of dynamical behaviors. Nucleic Acids Research, 39 (20). e138. doi:10.1093/nar/gkr616 ISSN 0305-1048.
Rodrigo, G., Carrera, J., Jaramillo, Alfonso and Elena, S. F. (2010) Optimal viral strategies for bypassing RNA silencing. Journal of The Royal Society Interface, 8 (55). pp. 257-268. doi:10.1098/rsif.2010.0264 ISSN 1742-5689.
Sixth Framework Programme (European Commission) (FP6)
Carrera, Javier, Rodrigo, Guillermo, Singh, Vijai, Kirov, Boris and Jaramillo, Alfonso (2011) Empirical model and in vivo characterization of the bacterial response to synthetic gene expression show that ribosome allocation limits growth rate. Biotechnology Journal, 6 (7). pp. 773-783. doi:10.1002/biot.201100084 ISSN 1860-6768.
Camsund, Daniel, Lindblad, Peter and Jaramillo, Alfonso (2011) Genetically engineered light sensors for control of bacterial gene expression. Biotechnology Journal, 6 (7). pp. 826-836. doi:10.1002/biot.201100091 ISSN 1860-6768.
Glykys, Doris J., Szilvay, Géza R., Tortosa, Pablo, Suárez Diez, María, Jaramillo, Alfonso and Banta, Scott (2011) Pushing the limits of automatic computational protein design : design, expression, and characterization of a large synthetic protein based on a fungal laccase scaffold. Systems and synthetic biology, 5 (1-2). pp. 45-58. doi:10.1007/s11693-011-9080-9 ISSN 1872-5325.
Rodrigo, G., Carrera, J., Jaramillo, Alfonso and Elena, S. F. (2010) Optimal viral strategies for bypassing RNA silencing. Journal of The Royal Society Interface, 8 (55). pp. 257-268. doi:10.1098/rsif.2010.0264 ISSN 1742-5689.
Spain. Generalitat Valenciana [Valencian Government]
Rodrigo, Guillermo, Jaramillo, Alfonso and Blázquez, Miguel A. (2011) Integral control of plant gravitropism through the interplay of hormone signaling and gene regulation. Biophysical Journal, 101 (4). pp. 757-763. doi:10.1016/j.bpj.2011.06.047 ISSN 0006-3495.
Carrera, Javier, Rodrigo, Guillermo, Singh, Vijai, Kirov, Boris and Jaramillo, Alfonso (2011) Empirical model and in vivo characterization of the bacterial response to synthetic gene expression show that ribosome allocation limits growth rate. Biotechnology Journal, 6 (7). pp. 773-783. doi:10.1002/biot.201100084 ISSN 1860-6768.
Rodrigo, G., Carrera, J. and Jaramillo, Alfonso (2011) Computational design of synthetic regulatory networks from a genetic library to characterize the designability of dynamical behaviors. Nucleic Acids Research, 39 (20). e138. doi:10.1093/nar/gkr616 ISSN 0305-1048.
Rodrigo, G., Carrera, J., Jaramillo, Alfonso and Elena, S. F. (2010) Optimal viral strategies for bypassing RNA silencing. Journal of The Royal Society Interface, 8 (55). pp. 257-268. doi:10.1098/rsif.2010.0264 ISSN 1742-5689.
Spain. Ministerio de Ciencia e Innovación
Rodrigo, Guillermo, Jaramillo, Alfonso and Blázquez, Miguel A. (2011) Integral control of plant gravitropism through the interplay of hormone signaling and gene regulation. Biophysical Journal, 101 (4). pp. 757-763. doi:10.1016/j.bpj.2011.06.047 ISSN 0006-3495.
Carrera, Javier, Rodrigo, Guillermo, Singh, Vijai, Kirov, Boris and Jaramillo, Alfonso (2011) Empirical model and in vivo characterization of the bacterial response to synthetic gene expression show that ribosome allocation limits growth rate. Biotechnology Journal, 6 (7). pp. 773-783. doi:10.1002/biot.201100084 ISSN 1860-6768.
Rodrigo, G., Carrera, J. and Jaramillo, Alfonso (2011) Computational design of synthetic regulatory networks from a genetic library to characterize the designability of dynamical behaviors. Nucleic Acids Research, 39 (20). e138. doi:10.1093/nar/gkr616 ISSN 0305-1048.
Spain. Ministerio de Ciencia e Innovación (MICINN)
Rodrigo, G., Carrera, J., Jaramillo, Alfonso and Elena, S. F. (2010) Optimal viral strategies for bypassing RNA silencing. Journal of The Royal Society Interface, 8 (55). pp. 257-268. doi:10.1098/rsif.2010.0264 ISSN 1742-5689.
Spain. Ministerio de Economía y Competitividad [Ministry of Economy and Competitiveness] (MINECO)
Shen, Shensi, Rodrigo, Guillermo, Prakash, Satya, Majer, Eszter, Landrain, Thomas E., Kiro, Boris, Daros, Jose-Antonio and Jaramillo, Alfonso (2015) Dynamic signal processing by ribozyme-mediated RNA circuits to control gene expression. Nucleic Acids Research, 43 (10). pp. 5158-5170. doi:10.1093/nar/gkv287 ISSN 0305-1048.
Rodrigo, Guillermo, Landrain, Thomas E., Majer, Eszter, Daròs, José-Antonio and Jaramillo, Alfonso (2013) Full design automation of multi-state RNA devices to program gene expression using energy-based optimization. PLoS Computational Biology, 9 (8). pp. 1-11. e1003172. doi:10.1371/journal.pcbi.1003172 ISSN 1553-7358.
Spain. Ministerio de Educación y Ciencia (MEC)
Shen, Shensi, Rodrigo, Guillermo, Prakash, Satya, Majer, Eszter, Landrain, Thomas E., Kiro, Boris, Daros, Jose-Antonio and Jaramillo, Alfonso (2015) Dynamic signal processing by ribozyme-mediated RNA circuits to control gene expression. Nucleic Acids Research, 43 (10). pp. 5158-5170. doi:10.1093/nar/gkv287 ISSN 0305-1048.
Suomen Akatemia [Academy of Finland]
Glykys, Doris J., Szilvay, Géza R., Tortosa, Pablo, Suárez Diez, María, Jaramillo, Alfonso and Banta, Scott (2011) Pushing the limits of automatic computational protein design : design, expression, and characterization of a large synthetic protein based on a fungal laccase scaffold. Systems and synthetic biology, 5 (1-2). pp. 45-58. doi:10.1007/s11693-011-9080-9 ISSN 1872-5325.
Sweden. Energimyndigheten [Swedish Energy Agency]
Camsund, Daniel, Lindblad, Peter and Jaramillo, Alfonso (2011) Genetically engineered light sensors for control of bacterial gene expression. Biotechnology Journal, 6 (7). pp. 826-836. doi:10.1002/biot.201100091 ISSN 1860-6768.
United States. Air Force. Office of Scientific Research (AFOSR)
Glykys, Doris J., Szilvay, Géza R., Tortosa, Pablo, Suárez Diez, María, Jaramillo, Alfonso and Banta, Scott (2011) Pushing the limits of automatic computational protein design : design, expression, and characterization of a large synthetic protein based on a fungal laccase scaffold. Systems and synthetic biology, 5 (1-2). pp. 45-58. doi:10.1007/s11693-011-9080-9 ISSN 1872-5325.
Universidad Autónoma de Barcelona (UAdB)
Pasini, Martina, Fernández-Castané, Alfred , Jaramillo, Alfonso, de Mas, Carles , Caminal, Gloria and Ferrer, Pau (2016) Using promoter libraries to reduce metabolic burden due to plasmid-encoded proteins in recombinant Escherichia coli. New Biotechnology, 33 (1). pp. 78-90. doi:10.1016/j.nbt.2015.08.003 ISSN 1871-6784 .
Université Paris-Sud
Rodrigo, Guillermo, Kirov, Boris, Shen, Shensi and Jaramillo, Alfonso (2013) Theoretical and experimental analysis of the forced LacI-AraC oscillator with a minimal gene regulatory model. Chaos: An Interdisciplinary Journal of Nonlinear Science, 23 (2). pp. 1-9. 025109. doi:10.1063/1.4809786 ISSN 1054-1500.
University of Warwick. School of Life Sciences
Rodrigo, Guillermo, Prakash, Satya, Shen, Shensi, Majer, Eszter, Daròs, José-Antonio and Jaramillo, Alfonso (2017) Model-based design of RNA hybridization networks implemented in living cells. Nucleic Acids Research, 45 (16). pp. 9797-9808. doi:10.1093/nar/gkx698 ISSN 0305-1048.
Wellcome Trust (London, England)
Brodel, Andreas K., Jaramillo, Alfonso and Isalan, Mark (2017) Intracellular directed evolution of proteins from combinatorial libraries based on conditional phage replication. Nature Protocols, 12 (9). pp. 1830-1843. doi:10.1038/nprot.2017.084 ISSN 1750-2799.
Brodel, Andreas K., Jaramillo, Alfonso and Isalan, Mark (2016) Engineering orthogonal dual transcription factors for multi-input synthetic promoters. Nature Communications, 7 . 13858 . doi:10.1038/ncomms13858 ISSN 2041-1723.
This list was generated on Thu Mar 28 20:37:25 2024 GMT.