On the Analysis of the Intersection of the Interactome and the Metabolome. - Joan Planas-Iglesias; Daniel Aguilar; Baldomero Oliva (Spanish Bioinformatics Conference, 2004)

Biana: a software framework for compiling biological interactions and analyzing networks. - Javier García-García 002; Emre Guney; Ramon Aragues; Joan Planas-Iglesias; Baldo Oliva (BMC Bioinform., 2010)

iLoops: a protein-protein interaction prediction server based on structural features. - Joan Planas-Iglesias; Manuel Alejandro Marín-López; Jaume Bonet; Javier García-García 002; Baldo Oliva (Bioinform., 2013)

Frag'r'Us: knowledge-based sampling of protein backbone conformations for de novo structure-based protein design. - Jaume Bonet; Joan Segura; Joan Planas-Iglesias; Baldomero Oliva; Narcis Fernandez-Fuentes (Bioinform., 2014)

ArchDB 2014: structural classification of loops in proteins. - Jaume Bonet; Joan Planas-Iglesias; Javier García-García 002; Manuel Alejandro Marín-López; Narcis Fernandez-Fuentes; Baldo Oliva (Nucleic Acids Res., 2014)

On the mechanisms of protein interactions: predicting their affinity from unbound tertiary structures. - Manuel Alejandro Marín-López; Joan Planas-Iglesias; Joaquim Aguirre-Plans; Jaume Bonet; Javier García-García 002; Narcis Fernandez-Fuentes; Baldo Oliva (Bioinform., 2018)

LoopGrafter: a web tool for transplanting dynamical loops for protein engineering. - Joan Planas-Iglesias; Filip Opálený; Pavol Ulbrich; Jan Stourac; Zainab K. Sanusi; Gaspar R. P. Pinto; Andrea Schenkmayerova; Jan Byska; Jirí Damborský; Barbora Kozlíková; David Bednar (Nucleic Acids Res., 2022)

SBILib: a handle for protein modeling and engineering. - Patrick Gohl; Jaume Bonet; Oriol Fornes; Joan Planas-Iglesias; Narcis Fernandez-Fuentes; Baldo Oliva (Bioinform., 2023)

PredictONCO: a web tool supporting decision-making in precision oncology by extending the bioinformatics predictions with advanced computing and machine learning. - Jan Stourac; Simeon Borko; Rayyan T. Khan; Petra Pokorna; Adam Dobias; Joan Planas-Iglesias; Stanislav Mazurenko; Gaspar R. P. Pinto; Veronika Szotkowska; Jaroslav Sterba; Ondrej Slaby; Jirí Damborský; et al. (Briefings Bioinform., 2023)

A computational workflow for analysis of missense mutations in precision oncology. - Rayyan T. Khan; Petra Pokorna; Jan Stourac; Simeon Borko; Ihor Arefiev; Joan Planas-Iglesias; Adam Dobias; Gaspar R. P. Pinto; Veronika Szotkowska; Jaroslav Sterba; Ondrej Slaby; Jirí Damborský; et al. (J. Cheminformatics, 2024)

Learning to engineer protein flexibility. - Petr Kouba; Joan Planas-Iglesias; Jirí Damborský; Jirí Sedlár; Stanislav Mazurenko; Josef Sivic (ICLR, 2025)

Visual Support for the Loop Grafting Workflow on Proteins. - Filip Opálený; Pavol Ulbrich; Joan Planas-Iglesias; Jan Byska; Jan Stourac; David Bednár; Katarína Furmanová; Barbora Kozlíková (IEEE Trans. Vis. Comput. Graph., 2025)