Trainable structure-activity relationship model for virtual screening of CYP3A4 inhibition. - Remigijus Didziapetris; Justas Dapkunas; Andrius Sazonovas; Pranas Japertas (J. Comput. Aided Mol. Des., 2010)

The PPI3D web server for searching, analyzing and modeling protein-protein interactions in the context of 3D structures. - Justas Dapkunas; Albertas Timinskas; Kliment Olechnovic; Mindaugas Margelevicius; Rytis Diciunas; Ceslovas Venclovas (Bioinform., 2017)

SKEMPI 2.0: an updated benchmark of changes in protein-protein binding energy, kinetics and thermodynamics upon mutation. - Justina Jankauskaite; Brian Jiménez-García; Justas Dapkunas; Juan Fernández-Recio; Iain H. Moal (Bioinform., 2019)

The COMER web server for protein analysis by homology. - Justas Dapkunas; Mindaugas Margelevicius (Bioinform., 2023)