| A probabilistic fragment-based protein structure prediction algorithm D Simoncini, F Berenger, R Shrestha, KYJ Zhang PloS one 7 (7), e38799, 2012 | 56 | 2012 |
| Lean-Docking: Exploiting Ligands’ Predicted Docking Scores to Accelerate Molecular Docking F Berenger, A Kumar, KYJ Zhang, Y Yamanishi Journal of Chemical Information and Modeling 61 (5), 2341-2352, 2021 | 49 | 2021 |
| Combining in silico and in cerebro approaches for virtual screening and pose prediction in SAMPL4 ARD Voet, A Kumar, F Berenger, KYJ Zhang Journal of computer-aided molecular design 28, 363-373, 2014 | 35 | 2014 |
| Predicting drug-induced transcriptome responses of a wide range of human cell lines by a novel tensor-train decomposition algorithm M Iwata, L Yuan, Q Zhao, Y Tabei, F Berenger, R Sawada, S Akiyoshi, ... Bioinformatics 35 (14), i191-i199, 2019 | 31 | 2019 |
| Electrostatic similarities between protein and small molecule ligands facilitate the design of protein-protein interaction inhibitors A Voet, F Berenger, KYJ Zhang PLoS One 8 (10), e75762, 2013 | 31 | 2013 |
| A rotation-translation invariant molecular descriptor of partial charges and its use in ligand-based virtual screening F Berenger, A Voet, XY Lee, KYJ Zhang Journal of Cheminformatics 6, 1-12, 2014 | 29 | 2014 |
| Durandal: fast exact clustering of protein decoys F Berenger, R Shrestha, Y Zhou, D Simoncini, KYJ Zhang Journal of computational chemistry 33 (4), 471-474, 2012 | 26 | 2012 |
| Entropy-accelerated exact clustering of protein decoys F Berenger, Y Zhou, R Shrestha, KYJ Zhang Bioinformatics 27 (7), 939-945, 2011 | 25 | 2011 |
| Semantic-directed clumping of disjunctive abstract states H Li, F Berenger, BYE Chang, X Rival ACM SIGPLAN Notices 52 (1), 32-45, 2017 | 24 | 2017 |
| A Distance-Based Boolean Applicability Domain for Classification of High Throughput Screening Data F Berenger, Y Yamanishi Journal of chemical information and modeling 59 (1), 463-476, 2018 | 19 | 2018 |
| Consensus queries in ligand-based virtual screening experiments F Berenger, O Vu, J Meiler Journal of cheminformatics 9, 1-13, 2017 | 18 | 2017 |
| Accelerating ab initio phasing with de novo models R Shrestha, F Berenger, KYJ Zhang Acta Crystallographica Section D: Biological Crystallography 67 (9), 804-812, 2011 | 14 | 2011 |
| Molecular generation by Fast Assembly of (Deep)SMILES fragments F Berenger, K Tsuda Journal of Cheminformatics 13 (1), 2021 | 10 | 2021 |
| PAR: a PARallel and distributed job crusher F Berenger, C Coti, KYJ Zhang Bioinformatics 26 (22), 2918-2919, 2010 | 8 | 2010 |
| Improvement of the novel inhibitor for Mycobacterium enoyl-acyl carrier protein reductase (InhA): a structure–activity relationship study of KES4 assisted by in silico … J Taira, T Umei, K Inoue, M Kitamura, F Berenger, JC Sacchettini, ... The Journal of antibiotics 73 (6), 372-381, 2020 | 7 | 2020 |
| Omics‐based Identification of Glycan Structures as Biomarkers for a Variety of Diseases S Akiyoshi, M Iwata, F Berenger, Y Yamanishi Molecular informatics 39 (1-2), 1900112, 2020 | 7 | 2020 |
| Chemoinformatics and structural bioinformatics in OCaml F Berenger, KYJ Zhang, Y Yamanishi Journal of cheminformatics 11, 1-13, 2019 | 7 | 2019 |
| Ranking Molecules with Vanishing Kernels and a Single Parameter: Active Applicability Domain Included F Berenger, Y Yamanishi Journal of chemical information and modeling 60 (9), 4376-4387, 2020 | 5 | 2020 |
| Quantum Annealing Designs Nonhemolytic Antimicrobial Peptides in a Discrete Latent Space A Tucs, F Berenger, A Yumoto, R Tamura, T Uzawa, K Tsuda ACS Medicinal Chemistry Letters 14 (5), 577-582, 2023 | 4 | 2023 |
| A community effort in SARS‐CoV‐2 drug discovery J Schimunek, P Seidl, K Elez, T Hempel, T Le, F Noé, S Olsson, L Raich, ... Molecular Informatics 43 (1), e202300262, 2024 | 2 | 2024 |
Yoshihiro YamanishiNagoya UniversityVerified email at i.nagoya-u.ac.jp
