
The Library
Browse by Warwick Author
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Number of items: 38.
2019
Galizi, Roberto and Jaramillo, Alfonso (2019) Engineering CRISPR guide RNA riboswitches for in vivo applications. Current Opinion in Biotechnology, 55 . pp. 103-113. doi:10.1016/j.copbio.2018.08.007
2018
Cordero, Teresa, Rosado, Arantxa, Majer, Eszter, Jaramillo, Alfonso, Rodrigo, Guillermo and Daròs, José-Antonio (2018) Boolean computation in plants using post-translational genetic control and a visual output signal. ACS Synthetic Biology, 7 (10). 2322–-2330. doi:10.1021/acssynbio.8b00214
Pacheco, Catarina C., Büttel, Zsófia, Pinto, Filipe, Rodrigo, Guillermo, Carrera, Javier, Jaramillo, Alfonso and Tamagnini, Paula (2018) Modulation of intracellular O2 concentration in Escherichia coli strains using oxygen consuming devices. ACS Synthetic Biology, 7 (7). pp. 1742-1752. doi:10.1021/acssynbio.7b00428
Howarth, Mark and Jaramillo, Alfonso (2018) Editorial overview : nanobiotechnology : baby steps and giant strides towards molecular mastery. Current Opinion in Biotechnology, 51 . iv-vi. doi:10.1016/j.copbio.2018.05.001
Brödel, Andreas K., Isalan, Mark and Jaramillo, Alfonso (2018) Engineering of biomolecules by bacteriophage directed evolution. Current Opinion in Biotechnology, 51 . pp. 32-38. doi:10.1016/j.copbio.2017.11.004
Senoussi, Anis, Lee Tin Wah, Jonathan, Shimizu, Yoshihiro, Robert, Jérôme, Jaramillo, Alfonso, Findeiss, Sven, Axmann, Ilka M. and Estevez-Torres, André (2018) Quantitative characterization of translational riboregulators using an in vitro transcription–translation system. ACS Synthetic Biology, 7 (5). pp. 1269-1278. doi:10.1021/acssynbio.7b00387
Ferreira, Eunice A., Pacheco, Catarina C., Pinto, Filipe, Pereira, José, Lamosa, Pedro, Oliveira, Paulo, Kirov, Boris, Jaramillo, Alfonso and Tamagnini, Paula (2018) Expanding the toolbox for Synechocystis sp. PCC 6803 : validation of replicative vectors and characterization of a novel set of promoters. Synthetic Biology, 3 (1). ysy014. doi:10.1093/synbio/ysy014
2017
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
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
Jaramillo, Alfonso (2017) Synthetic biology : engineered stable ecosystems. Nature microbiology, 2 (8). 17119. doi:10.1038/nmicrobiol.2017.119
2016
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
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
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
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
Rodrigo, Guillermo, Prakash, Satya, Cordero, Teresa, Kushwaha, Manish and Jaramillo, Alfonso (2016) Functionalization of an antisense small RNA. Journal of Molecular Biology, 428 Part B (5). pp. 889-892. doi:10.1016/j.jmb.2015.12.022
2015
Rodrigo, Guillermo, Majer, Eszter, Prakash, Satya, Daros, Jose Antonio, Jaramillo, Alfonso and Poyatos, Juan F. (2015) Exploring the dynamics and mutational landscape of riboregulation with a minimal synthetic circuit in living cells. Biophysical Journal, 109 (5). pp. 1070-1076. doi:10.1016/j.bpj.2015.07.021
Amos, Martyn, Axmann, Ilka Maria, Blüthgen, Nils, de la Cruz, Fernando, Jaramillo, Alfonso, Rodriguez-Paton, Alfonso and Simmel, Friedrich (2015) Bacterial computing with engineered populations. Philosophical Transactions of the Royal Society A: Mathematical, Physica and Engineering Sciences, 373 (2046). 20140218. doi:10.1098/rsta.2014.0218
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
Hassall, Jack, MacDonald, Paul, Cordero, Teresa, Rostain, William and Jaramillo, Alfonso (2015) Design and characterization of topological small RNAs. In: Ponchon, Luc, (ed.) RNA Scaffolds. Methods in Molecular Biology, Volume 1316 . Berlin: Springer, pp. 149-167. ISBN 9781493927296
2014
Rostain, William, Landrain, Thomas E., Rodrigo, Guillermo and Jaramillo, Alfonso (2014) Regulatory RNA design through evolutionary computation and strand displacement. In: Marchisio, Mario Andrea , (ed.) Computational Methods in Synthetic Biology. Methods in Molecular Biology, 1244 . New York: Springer, pp. 63-78. ISBN 9781493918775
Rodrigo, Guillermo and Jaramillo, Alfonso (2014) RiboMaker : computational design of conformation-based riboregulation. Bioinformatics, Volume 30 (Number 17). pp. 2508-2510. doi:10.1093/bioinformatics/btu335
2013
Rodrigo, Guillermo, Landrain, Thomas E., Shen, Shensi and Jaramillo, Alfonso (2013) A new frontier in synthetic biology : automated design of small RNA devices in bacteria. Trends in Genetics, Volume 29 (Number 9). pp. 529-536. doi:10.1016/j.tig.2013.06.005
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
Suárez-Diez, Maria, Pujol, Anaïs M., Matzapetakis, Manolis, Jaramillo, Alfonso and Iranzo, Olga (2013) Computational protein design with electrostatic focusing : experimental characterization of a conditionally folded helical domain with a reduced amino acid alphabet. Biotechnology Journal, 8 (7). pp. 855-864. doi:10.1002/biot.201200380
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
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
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
2012
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
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
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
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
2011
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
Jaramillo, Alfonso and Faulon, Jean-Loup (2011) Editorial : synthetic biology - applying new paradigms at the interface of fundamental research and innovation. Biotechnology Journal, 6 (7). pp. 766-767. doi:10.1002/biot.201100254
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
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
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
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
2010
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
This list was generated on Sat Feb 23 00:47:42 2019 GMT.