JDet: interactive calculation and visualization of function-related conservation patterns in multiple sequence alignments and structures. - Thilo Muth; Juan A. García-Martín; Antonio Rausell; David de Juan; Alfonso Valencia; Florencio Pazos (Bioinform., 2012)

Rnaifold: a Constraint Programming Algorithm for RNA inverse Folding and molecular Design. - Juan Antonio García-Martín; Peter Clote; Iván Dotú (J. Bioinform. Comput. Biol., 2013)

RNAiFold: a web server for RNA inverse folding and molecular design. - Juan Antonio García-Martín; Peter Clote; Iván Dotú (Nucleic Acids Res., 2013)

Poster abstract: RNA thermodynamic conformational entropy. - Juan Antonio García-Martín; Peter Clote (BCB, 2015)

RNAiFold 2.0: a web server and software to design custom and Rfam-based RNA molecules. - Juan Antonio García-Martín; Iván Dotú; Peter Clote (Nucleic Acids Res., 2015)

Practical analysis of specificity-determining residues in protein families. - Monica Chagoyen; Juan A. García-Martín; Florencio Pazos (Briefings Bioinform., 2016)

RNAiFold2T: Constraint Programming design of thermo-IRES switches. - Juan Antonio García-Martín; Iván Dotú; Javier Fernandez-Chamorro; Gloria Lozano; Jorge Ramajo; Encarnacion Martinez-Salas; Peter Clote (Bioinform., 2016)

New tools to analyze overlapping coding regions. - Amir H. Bayegan; Juan Antonio García-Martín; Peter Clote (BMC Bioinform., 2016)

RNAdualPF: software to compute the dual partition function with sample applications in molecular evolution theory. - Juan Antonio García-Martín; Amir H. Bayegan; Iván Dotú; Peter Clote (BMC Bioinform., 2016)