PredictSNP: Robust and Accurate Consensus Classifier for Prediction of Disease-Related Mutations. - Jaroslav Bendl; Jan Stourac; Ondrej Salanda; Antonín Pavelka; Eric D. Wieben; Jaroslav Zendulka; Jan Brezovsky; Jirí Damborský (PLoS Comput. Biol., 2014)

FireProt: Energy- and Evolution-Based Computational Design of Thermostable Multiple-Point Mutants. - David Bednar; Koen Beerens; Eva Sebestova; Jaroslav Bendl; Sagar D. Khare; Radka Chaloupkova; Zbynek Prokop; Jan Brezovsky; David Baker 001; Jirí Damborský (PLoS Comput. Biol., 2015)

HotSpot Wizard 2.0: automated design of site-specific mutations and smart libraries in protein engineering. - Jaroslav Bendl; Jan Stourac; Eva Sebestova; Ondrej Vavra; Milos Musil; Jan Brezovsky; Jirí Damborský (Nucleic Acids Res., 2016)

PredictSNP2: A Unified Platform for Accurately Evaluating SNP Effects by Exploiting the Different Characteristics of Variants in Distinct Genomic Regions. - Jaroslav Bendl; Milos Musil; Jan Stourac; Jaroslav Zendulka; Jirí Damborský; Jan Brezovsky (PLoS Comput. Biol., 2016)

FireProt: web server for automated design of thermostable proteins. - Milos Musil; Jan Stourac; Jaroslav Bendl; Jan Brezovsky; Zbynek Prokop; Jaroslav Zendulka; Tomás Martínek; David Bednar; Jirí Damborský (Nucleic Acids Res., 2017)

decorate: differential epigenetic correlation test. - Gabriel E. Hoffman; Jaroslav Bendl; Kiran Girdhar; Panos Roussos (Bioinform., 2020)