Recent
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Martínez-García E, Fraile S, Algar E, Aparicio T, Velázquez E, Calles B, Tas H, Blázquez B, Martín B, Prieto C, Sánchez-Sampedro L, Nørholm MHH, Volke DC, Wirth NT, Dvořák P, Alejaldre L, Grozinger L, Crowther M, Goñi-Moreno A, Nikel PI, Nogales J, de Lorenzo V. SEVA 4.0: an update of the Standard European Vector Architecture database for advanced analysis and programming of bacterial phenotypes. Nucleic Acids Res. (2023)
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, & Pressure-dependent growth controls 3D architecture of Pseudomonas putida microcolonies. Environmental Microbiology Reports. (2023)
- Crowther, M., Wipat, A., Goñi-Moreno, A. A network approach to genetic circuit designs. ACS Synthetic Biology (2022)
- Grozinger, L., Heidrich, E., Goñi-Moreno, A., An electrogenetic toggle switch model. Microbial Biotechnology (2022)
- Tellechea-Luzardo, J., Otero-Muras, I., Goñi-Moreno, A., Carbonell, P. Fast biofoundries: coping with the challenges of biomanufacturing. Trends in Biotechnology (2022)
- Tas, H., Grozinger, L., Goñi-Moreno, A., de Lorenzo, V. Automated design and implementation of a NOR gate in Pseudomonas putida. Synthetic Biology 6(1) (2021).
- Kim, J., Goñi-Moreno, A., de Lorenzo, V., Subcellular Architecture of the xyl Gene Expression Flow of the TOL Catabolic Plasmid of Pseudomonas putida mt-2. mBio 12, 1 (2021).
- Tas, H., Grozinger, L., Stoof, R., de Lorenzo, V., Goñi-Moreno, A. Contextual dependencies expand the re-usability of genetic inverters. Nature Communications 12, 355 (2021). https://doi.org/10.1038/s41467-020-20656-5
- Stoof, R., Goñi-Moreno, A. Modelling co-translational dimerization for programmable nonlinearity in synthetic biology. J. R. Soc. Interface. 1720200561 (2020)
- Brow, B., Bartley, B., Beal, J., Bird, JE., Goñi-Moreno, A., McLaughlin, JA., Mısırlı, G., Roehner, N., Skelton, DJ., Poh, CL., Ofiteru, ID., James, K., Wipat, A. Capturing Multicellular System Designs Using Synthetic Biology Open Language (SBOL). ACS Synthetic Biology 9, 9, 2410-2417 (2020)
- Beal, J., Goñi-Moreno, A., Myers, C., Hecht, A., del Carmen de Vicente, M., Parco, M., Schmidt, M., Timmis, K., Baldwin, G., Friedrichs, S., Freemont, P., Kiga, D., Ordozgoiti, E., Rennig, M., Rios, L., Tanner, K., de Lorenzo, V., Porcar, M., The long journey towards standards for engineering biosystems: Are the Molecular Biology and the Biotech communities ready to standardise? EMBO reports, e50521 (2020)
- Calles, B., Goñi-Moreno, A., de Lorenzo, V. Digitalizing heterologous gene expression in Gram‐negative bacteria with a portable ON/OFF module. Molecular Systems Biology 15:e8777 (2019)
- Grozinger, L., Amos, M., Gorochowski, T.E., Carbonell, P., Oyarzún, D.A., Stoof, R., Fellermann, H., Zuliani, P., Tas, H., Goñi-Moreno, A. Pathways to cellular supremacy in biocomputing. Nature Communications 10(1), 1-11 (2019).
- Martínez-García, E., Goñi-Moreno, A., Bartley, B., McLaughlin, J., Sánchez-Sampedro, L., Pascual del Pozo, H., Prieto Hernández, C., Marletta, A.S., De Lucrezia, D., Sánchez-Fernández, G., Fraile, S., de Lorenzo, V. SEVA 3.0: an update of the Standard European Vector Architecture for enabling portability of genetic constructs among diverse bacterial hosts. Nucleic Acids Research (2019).
- Stoof, R., Wood, A., & Goñi-Moreno, A. A Model for the Spatiotemporal Design of Gene Regulatory Circuits. ACS synthetic biology (2019).
- Beal, J., Nguyen, T., Gorochowski, T. E., Goñi-Moreno, A., Scott-Brown, J., McLaughlin, J. A., … & Bissell, M. Communicating Structure and Function in Synthetic Biology Diagrams. ACS synthetic biology (2019).
- Fellermann, H., Penn, A. S., Füchslin, R. M., Bacardit, J., & Goñi-Moreno, A. Towards low-carbon conferencing: acceptance of virtual conferencing solutions and other sustainability measures. International Conference on the Synthesis and Simulation of Living Systems (ALIFE) (pp. 1-3) (2019)
- Fellermann, H., Bacardit, J., Goñi-Moreno, A., & Füchslin, R. M. Artificial life in a challenged world. International Conference on the Synthesis and Simulation of Living Systems (ALIFE) (pp. 1-3) (2019)
- Hallinan, J.S., Wipat, A., Kitney, R., Woods, S., Taylor, K., Goñi-Moreno, A. Future-proofing synthetic biology: educating the next generation. IET Engineering Biology (2019).
- Misirli, G., Taylor, R., Goñi-Moreno, A., McLaughlin, JA., Myers, C., Genari, JH., Wipat, A. SBOL-OWL: An Ontological Approach for Formal and Semantic Representation of Synthetic Biology Information. ACS Synthetic Biology (2019) – Preprint
- Kitney, R., Adeogun, M., Fujishima, Y., Goñi-Moreno, A., Johnson, R., Maxon, M., Steedman, S., Ward, S., Winickoff, D., Philip, J. Enabling the Advanced Bioeconomy through Public Policy Supporting Biofoundries and Engineering Biology. Trends in Biotechnology (2019)
- Madsen, C., Goñi-Moreno A. et al. Synthetic Biology Open Language (SBOL) Version 2.3 Journal of Integrative Bioinformatics (2019).
- Goñi-Moreno A., Nikel, PI., High-Performance Biocomputing in Synthetic Biology–Integrated Transcriptional and Metabolic circuits. Frontiers in Bioengineering and Biotechnology 7, 40 (2019)
- Kim, J., Goñi-Moreno A., Calles, B., de Lorenzo, V., Spatial organisation of the gene expression hardware in Pseudomonas putida. Environmental Microbiology (2019)
- Goñi-Moreno A., de la Cruz, F., Rodriguez-Paton, A., Amos, M. Dynamical task switching in cellular computers. MDPI Life, 9(1)-14 (2019) – Preprint
- Amos M., Goñi-Moreno A. Cellular Computing and Synthetic Biology. In: Stepney S., Rasmussen S., Amos M. (eds) Computational Matter. Natural Computing Series. Springer, Cham (2018)
- Goñi-Moreno, A., & de Lorenzo, V. Bio-Algorithmic Workflows for Standardized Synthetic Biology Constructs. In Synthetic Biology (pp. 363-372). Humana Press, New York, NY. (2018)
- McLaughlin JA, Myers CJ, Zundel Z, Misirli G, Zhang M, Ofiteru ID, Goñi-Moreno A, Wipat A. SynBioHub: a standards-enabled design repository for synthetic biology. ACS Synthetic Biology (2018).
- Garcia-Betancour, JC., Goñi-Moreno, A., et al. Cell differentiation defines acute and chronic infection cell types in Staphylococcus aureus. eLife 2017;6:e28023 (2017) Web
- Goñi-Moreno, A., Wipat, A., Krasnogor, N. CSBB: synthetic biology research at Newcastle University. Biochemical Society Transactions 45(3) 781-783 (2017) Web.
- Goñi-Moreno, A., Benedetti, I., Kim, J., de Lorenzo, V. Deconvolution of gene expression noise into spatial dynamics of transcription factor-promoter interplay. ACS Synthetic Biology (2017) Web.
Archive
- Chavarria, M., Goñi-Moreno, A., de Lorenzo, V. & Nikel, P. A metabolic widget adjusts the phosphoenolpyruvate-dependent fructose influx in Pseudomonas putida KT2240. mSystems (2016) Web
- Rodriguez-Espeso, D., Martínez García, E., de Lorenzo, V., & Goñi-Moreno, A. Physical forces shape group identity of swimming Pseudomonas putida cells. Frontiers in Microbiology, 7, 1437 (2016) Web
- Goñi-Moreno, A., Kim, J. & de Lorenzo, V. CellShape: a user-friendly image analysis tool for quantitative visualization of bacterial cell factories inside. Biotechnology Journal. Web (2016)
- Goñi-Moreno, A. Carcajona, M., Kim, J., Martínez-García, E. Amos, M & de Lorenzo, V. An implementation-focused bio/algorithmic workflow for synthetic biology. ACS Synthetic Biology. (2016) Web
- Goñi-Moreno, A. & Amos, M. DiSCUS: A simulation platform for conjugation computing. In Calude, C.S. & Dineen, M.J. (Eds), Unconventional and Natural Computation (UCNC 2015), Auckland, New Zealand, August 31-September 4, 2015. Springer, p.p. 181-191 (2015) PDF
- Nikel PI, Romero-Campero FJ, Zeidman JA, Goñi-Moreno Á, de Lorenzo V. 2015. The glycerol-dependent metabolic persistence of Pseudomonas putida KT2440 reflects the regulatory logic of the GlpR repressor. mBio 6(2):e00340-15. doi:10.1128/mBio.00340-15.(2015) Web
- Martínez-García, E. Aparicio, T. Goñi-Moreno, A. Fraile, A. de Lorenzo, V. SEVA 2.0: an update of the Standard European Vector Architecture for de-/re-construction of bacterial functionalities. Nucleic Acids Research 43 (D1), D1183-D1189 (2014) Web
- Goñi-Moreno, A. On genetic logic circuits: forcing digital electronic standards? Memetic Computing 6 (3), 149-155 (2014) Web
- Goñi-Moreno, A., Amos, M., de la Cruz, F. Multicellular computing using conjugation for wiring .PLoS ONE 8(6): e65986. doi:10.1371/journal.pone.0065986 (2013). Web
- Goñi-Moreno, A., Amos, M. A reconfigurable NAND/NOR genetic logic gate. BMC Systems Biology, 6 (1), 126 (2012) Web
- Goñi-Moreno, A., Amos, M. Continuous computation in engineered gene circuits. BioSystems 109 (1), 52-56 (2012) Web
- Goñi-Moreno A. Bacterias como micromaquinas. Investigacion y ciencia. ISSN 0210-136X. N 430, pags 11-13. (2012) Web
- Navarro J, Goñi-Moreno A, Marijuán P.C. Varieties of Biological Information: A molecular recognition approach to systems biology and bioinformatics. International Conference on Natural Information Technologies, Madrid 28Sep-02Oct. Published by International Journal Information Technologies & Knowledge, 56-66. (2010)
- Goñi-Moreno A, Amos M. Engineered microbial communication for population-level behaviour. Artificial Life XII. Proceedings of the 12th International Conference on the Synthesis and Simulation of Living Systems, Denmark. Harold Fellermann, Mark Dörr, Martin M. Hanczyc, Lone Ladegaard Laursen, Sarah Maurer, Daniel Merkle, Pierre-Alain Monnard, Kasper Stoy and Steen Rasmussen (Eds.), MIT Press 184-185. (2010)
- Arteta A, Arroyo A, Goñi-Moreno A. Calculating maximal multisets of objects by using RAM as support. 15th International Symposium on Artificial Life and Robotics AROB’10. Japan. (OS):28-31. (2010)
- Goñi-Moreno A, Cordero P. Conditional development of bacterial based swarm intelligent systems and real biological manipulation. Proc of Computer Science and Technologies conference CSIT’O9. Armenia, 222-225. (2009)
- Cordero P, Goñi-Moreno A, Castellanos J. Using directed evolution techniques to solve hard combinatorial problems. Proc of Computer Science and Technologies conference CSIT’O9. Armenia, 225-229.(2009)
- Rio T, Cisneros FJ, Goñi-Moreno A, Castellanos J. Simulation of a DNA denaturation process. Proc. of the 7th ACS/IEEE International Conference on Computer Systems and Applications. 737-742. (2009)
- De la Peña A, Cisneros FJ, Goñi-Moreno A, Castellanos J. DNA electrophoresis simulation. Lecture Notes in Computer Science. 5518: 585-588. (2009)
- Goñi-Moreno A, Cordero P. Global memory structure for ant colony optimization algorithms. Intelligent Engineering. 3:116-122. (2009).
- Arteta A, Goñi-Moreno A, Castellanos J. Analysis of P-Systems under a multiagent system perspective. Intelligent Processing. 3: 117-128.(2009)
- Goñi-Moreno A, Cisneros FJ, Cordero P, Castellanos J. A DNA codification for genetic algorithms simulation. Advance Research in Artificial Intelligence. 2:69-74. (2008)
- Goñi-Moreno A. Solving Travelling Salesman Problem in a simulation of genetic algorithms with DNA. Information Theories and Applications. 15(4): 357-363. (2008).
- Baños R, Cordero P, Goñi-Moreno A, Castellanos J. Simulation of a DNA renaturalization process. International Conference on Metaheuristics and Nature Inpired Computing META’08. (2008)
- Goñi-Moreno A. Crossover operator in DNA simulation of genetic algorithms. Proc. of the 5th International Conference Information Research and Applications I-TECH’07. 1: 74-79. (2007)
