Parameter optimized surfaces (POPS): analysis of key interactions and conformational changes in the ribosome. - Franca Fraternali; Luigi Cavallo (Nucleic Acids Res., 2002)

POPS: a fast algorithm for solvent accessible surface areas at atomic and residue level. - Luigi Cavallo; Jens Kleinjung; Franca Fraternali (Nucleic Acids Res., 2003)

POPSCOMP: an automated interaction analysis of biomolecular complexes. - Jens Kleinjung; Franca Fraternali (Nucleic Acids Res., 2005)

MinSet: a general approach to derive maximally representative database subsets by using fragment dictionaries and its application to the SCOP database. - Alessandro Pandini; Laura Bonati; Franca Fraternali; Jens Kleinjung (Bioinform., 2007)

Multi-Scale Simulations Provide Supporting Evidence for the Hypothesis of Intramolecular Protein Translocation in GroEL/GroES Complexes. - Ivan Coluzza; Alfonso De Simone; Franca Fraternali; Daan Frenkel (PLoS Comput. Biol., 2008)

GSATools: analysis of allosteric communication and functional local motions using a structural alphabet. - Alessandro Pandini; Arianna Fornili; Franca Fraternali; Jens Kleinjung (Bioinform., 2013)

PinSnps: structural and functional analysis of SNPs in the context of protein interaction networks. - Hui-Chun Lu; Julián Herrera Braga; Franca Fraternali (Bioinform., 2016)

TITINdb - a computational tool to assess titin's role as a disease gene. - Anna Laddach; Mathias Gautel; Franca Fraternali (Bioinform., 2017)

In silico identification of rescue sites by double force scanning. - Matteo Tiberti; Alessandro Pandini; Franca Fraternali; Arianna Fornili (Bioinform., 2018)

BRepertoire: a user-friendly web server for analysing antibody repertoire data. - Christian Margreitter; Hui-Chun Lu; Catherine Townsend; Alexander Stewart; Deborah K. Dunn-Walters; Franca Fraternali (Nucleic Acids Res., 2018)

Prediction of Protein-Protein Interactions: Looking Through the Kaleidoscope. - Anna Laddach; Sun Sook Chung; Franca Fraternali (Encyclopedia of Bioinformatics and Computational Biology (2), 2019)

PDBe-KB: a community-driven resource for structural and functional annotations. - Mihaly Varadi; John M. Berrisford; Mandar S. Deshpande; Sreenath Nair; Aleksandras Gutmanas; David R. Armstrong; Lukás Pravda; Bissan Al-Lazikani; Stephen Anyango; Geoffrey J. Barton; Karel Berka; Tom L. Blundell; et al. (Nucleic Acids Res., 2020)

PDBe-KB: collaboratively defining the biological context of structural data. - Mihaly Varadi; Stephen Anyango; David R. Armstrong; John M. Berrisford; Preeti Choudhary; Mandar S. Deshpande; Nurul Nadzirin; Sreenath Nair; Lukás Pravda; Ahsan Tanweer; Bissan Al-Lazikani; Claudia Andreini; et al. (Nucleic Acids Res., 2022)