Genetdes: automatic design of transcriptional networks. - Guillermo Rodrigo; Javier Carrera; Alfonso Jaramillo (Bioinform., 2007)

Computational design of proteins with new functions. - Alfonso Jaramillo; Pablo Tortosa; Guillermo Rodrigo; María Suárez; Javier Carrera (BMC Syst. Biol., 2007)

ECOLITASTER: cellular biosensor. - Guillermo Rodrigo; Javier Carrera; Alfonso Jaramillo (BMC Syst. Biol., 2007)

DESHARKY: automatic design of metabolic pathways for optimal cell growth. - Guillermo Rodrigo; Javier Carrera; Kristala Jones Prather; Alfonso Jaramillo (Bioinform., 2008)

Pareto optimization in computational protein design with multiple objectives. - María Suárez; Pablo Tortosa; Javier Carrera; Alfonso Jaramillo (J. Comput. Chem., 2008)

Protein Design Based on Parallel Dimensional Reduction. - Germán Moltó; María Suárez; Pablo Tortosa; José M. Alonso; Vicente Hernández; Alfonso Jaramillo (J. Chem. Inf. Model., 2009)

Robust dynamical pattern formation from a multifunctional minimal genetic circuit. - Guillermo Rodrigo; Javier Carrera; Santiago F. Elena; Alfonso Jaramillo (BMC Syst. Biol., 2010)

Fine-Tuning Tomato Agronomic Properties by Computational Genome Redesign. - Javier Carrera; Asun Fernández del Carmen; Rafael Fernández-Muñoz; Jose Luis Rambla; Clara Pons; Alfonso Jaramillo; Santiago F. Elena; Antonio Granell (PLoS Comput. Biol., 2012)

Automated design of bacterial genome sequences. - Javier Carrera; Alfonso Jaramillo (BMC Syst. Biol., 2013)

Full Design Automation of Multi-State RNA Devices to Program Gene Expression Using Energy-Based Optimization. - Guillermo Rodrigo; Thomas E. Landrain; Eszter Majer; José-Antonio Daròs; Alfonso Jaramillo (PLoS Comput. Biol., 2013)

RiboMaker: computational design of conformation-based riboregulation. - Guillermo Rodrigo; Alfonso Jaramillo (Bioinform., 2014)