A Branch and Bound Algorithm for Matching Protein Structures. - Janez Konc; Dusanka Janezic (ICANNGA (2), 2007)

Protein-Protein Binding-Sites Prediction by Protein Surface Structure Conservation. - Janez Konc; Dusanka Janezic (J. Chem. Inf. Model., 2007)

Protein Surface Conservation in Binding Sites. - Nejc Carl; Janez Konc; Dusanka Janezic (J. Chem. Inf. Model., 2008)

ProBiS algorithm for detection of structurally similar protein binding sites by local structural alignment. - Janez Konc; Dusanka Janezic (Bioinform., 2010)

Protein-Protein Binding Site Prediction by Local Structural Alignment. - Nejc Carl; Janez Konc; Blaz Vehar; Dusanka Janezic (J. Chem. Inf. Model., 2010)

ProBiS: a web server for detection of structurally similar protein binding sites. - Janez Konc; Dusanka Janezic (Nucleic Acids Res., 2010)

Parallel-ProBiS: Fast parallel algorithm for local structural comparison of protein structures and binding sites. - Janez Konc; Matjaz Depolli; Roman Trobec; Kati Rozman; Dusanka Janezic (J. Comput. Chem., 2012)

Correlating Protein Hot Spot Surface Analysis Using ProBiS with Simulated Free Energies of Protein-Protein Interfacial Residues. - Nejc Carl; Milan Hodoscek; Blaz Vehar; Janez Konc; Bernard R. Brooks; Dusanka Janezic (J. Chem. Inf. Model., 2012)

ProBiS-Database: Precalculated Binding Site Similarities and Local Pairwise Alignments of PDB Structures. - Janez Konc; Tomo Cesnik; Joanna Trykowska Konc; Matej Penca; Dusanka Janezic (J. Chem. Inf. Model., 2012)

ProBiS-2012: web server and web services for detection of structurally similar binding sites in proteins. - Janez Konc; Dusanka Janezic (Nucleic Acids Res., 2012)

Exact Parallel Maximum Clique Algorithm for General and Protein Graphs. - Matjaz Depolli; Janez Konc; Kati Rozman; Roman Trobec; Dusanka Janezic (J. Chem. Inf. Model., 2013)

Structurally Conserved Binding Sites of Hemagglutinin as Targets for Influenza Drug and Vaccine Development. - Muhammad Yusuf; Janez Konc; Sy Bing Choi; Joanna Trykowska Konc; Nurul Bahiyah Ahmad Khairudin; Dusanka Janezic; Habibah A. Wahab (J. Chem. Inf. Model., 2013)

Structure-Based Function Prediction of Uncharacterized Protein Using Binding Sites Comparison. - Janez Konc; Milan Hodoscek; Mitja Ogrizek; Joanna Trykowska Konc; Dusanka Janezic (PLoS Comput. Biol., 2013)

ProBiS-ligands: a web server for prediction of ligands by examination of protein binding sites. - Janez Konc; Dusanka Janezic (Nucleic Acids Res., 2014)

Molecular dynamics to enhance structure-based virtual screening on cathepsin B. - Mitja Ogrizek; Samo Turk; Samo Lesnik; Izidor Sosic; Milan Hodoscek; Bojana Mirkovic; Janko Kos; Dusanka Janezic; Stanislav Gobec; Janez Konc (J. Comput. Aided Mol. Des., 2015)

Modeling enzyme-ligand binding in drug discovery. - Janez Konc; Samo Lesnik; Dusanka Janezic (J. Cheminformatics, 2015)

ProBiS-CHARMMing: Web Interface for Prediction and Optimization of Ligands in Protein Binding Sites. - Janez Konc; Benjamin T. Miller; Tanja Stular; Samo Lesnik; H. Lee Woodcock III; Bernard R. Brooks; Dusanka Janezic (J. Chem. Inf. Model., 2015)

LiSiCA: A Software for Ligand-Based Virtual Screening and Its Application for the Discovery of Butyrylcholinesterase Inhibitors. - Samo Lesnik; Tanja Stular; Boris Brus; Damijan Knez; Stanislav Gobec; Dusanka Janezic; Janez Konc (J. Chem. Inf. Model., 2015)

Ligand-based virtual screening interface between PyMOL and LiSiCA. - Athira Dilip; Samo Lesnik; Tanja Stular; Dusanka Janezic; Janez Konc (J. Cheminformatics, 2016)

BoBER: web interface to the base of bioisosterically exchangeable replacements. - Samo Lesnik; Blaz Skrlj; Nika Erzen; Urban Bren; Stanislav Gobec; Janez Konc; Dusanka Janezic (J. Cheminformatics, 2017)

GenProBiS: web server for mapping of sequence variants to protein binding sites. - Janez Konc; Blaz Skrlj; Nika Erzen; Tanja Kunej; Dusanka Janezic (Nucleic Acids Res., 2017)

Identification of Conserved Water Sites in Protein Structures for Drug Design. - Marko Jukic; Janez Konc; Stanislav Gobec; Dusanka Janezic (J. Chem. Inf. Model., 2017)

Deep Node Ranking: an Algorithm for Structural Network Embedding and End-to-End Classification. - Blaz Skrlj; Jan Kralj; Janez Konc; Marko Robnik-Sikonja; Nada Lavrac (CoRR, 2019)

Discovery of Novel Potential Human Targets of Resveratrol by Inverse Molecular Docking. - Katarina Kores; Samo Lesnik; Urban Bren; Dusanka Janezic; Janez Konc (J. Chem. Inf. Model., 2019)

CANDOCK: Chemical Atomic Network-Based Hierarchical Flexible Docking Algorithm Using Generalized Statistical Potentials. - Jonathan Fine; Janez Konc; Ram Samudrala; Gaurav Chopra (J. Chem. Inf. Model., 2020)

Loop Grafting between Similar Local Environments for Fc-Silent Antibodies. - Samo Lesnik; Milan Hodoscek; Barbara Podobnik; Janez Konc (J. Chem. Inf. Model., 2020)

CaNDis: a web server for investigation of causal relationships between diseases, drugs and drug targets. - Blaz Skrlj; Nika Erzen; Nada Lavrac; Tanja Kunej; Janez Konc (Bioinform., 2021)

ProBiS-Dock Database: A Web Server and Interactive Web Repository of Small Ligand-Protein Binding Sites for Drug Design. - Janez Konc; Samo Lesnik; Blaz Skrlj; Dusanka Janezic (J. Chem. Inf. Model., 2021)

Deep node ranking for neuro-symbolic structural node embedding and classification. - Blaz Skrlj; Jan Kralj; Janez Konc; Marko Robnik-Sikonja; Nada Lavrac (Int. J. Intell. Syst., 2022)

ProBiS-Fold Approach for Annotation of Human Structures from the AlphaFold Database with No Corresponding Structure in the PDB to Discover New Druggable Binding Sites. - Janez Konc; Dusanka Janezic (J. Chem. Inf. Model., 2022)

ProBiS-Dock: A Hybrid Multitemplate Homology Flexible Docking Algorithm Enabled by Protein Binding Site Comparison. - Janez Konc; Samo Lesnik; Blaz Skrlj; Matej Sova; Matic Proj; Damijan Knez; Stanislav Gobec; Dusanka Janezic (J. Chem. Inf. Model., 2022)

Advanced clique algorithms for protein product graphs. - Janez Konc; Dusanka Janezic (Art Discret. Appl. Math., 2025)