 (10) Hyperdimensional computing: a fast, robust and interpretable paradigm for biological dataM. Stock, D. Boeckaerts, P. Dewulf, S. Taelman, M. Van Haeverbeke, W. Van Criekinge and B. De Baets(2024) PLOS COMPUTATIONAL BIOLOGY. 20, e1012426 . |
| (9) DepoScope: accurate phage depolymerase annotation
and domain delineation using large language modelsR. Concha-Eloko, M. Stock, B. De Baets, Y. Briers, R. Sanjuan,
P. Domingo-Calap and D. Boeckaerts(2024) PLOS COMPUTATIONAL BIOLOGY. 20, e1011831. |
| (8) Prediction of Klebsiella phage-host specificity at the strain levelD. Boeckaerts, M. Stock, C. Ferriol-González, J. Oteo-Iglesias, R. Sanjuán, P. Domingo-Calap, B. De Baets and Y. Briers(2024) NATURE COMMUNICATIONS. 15, 4355. |
| (7) Foundation of the Belgian Society for Viruses of Microbes and meeting report of its inaugural symposiumA. Łątka, A. Aertsen, D. Boeckaerts, B. Blasdel, P.-J. Ceyssens, A. Garcia-Pino, A. Gillis, R. Lavigne, G. Lima-Mendez, J. Mattijnssens, J. Onsea, E. Peeters, J.-P. Pirnay, D. Thiry, D. Vandenheuvel, E. Van Mechelen, J. Venneman, G. Verbeken, J. Wagemans and Y. Briers(2023) VIRUSES-BASEL. 15, 1213. |
| (6) The specific capsule depolymerase of phage PMK34 sensitizes Acinetobacter baumannii to serum killingK.A.S. Abdelkader, D.G. Fernandez, A. Łątka, D. Boeckaerts, Z. Drulis-Kawa, B. Criel, H. Gerstmans, A. Safaan, A.S. Khairalla, Y. Gaber, T. Dishisha and Y. Briers(2022) ANTIOBIOTICS-BASEL. 11, 677. |
| (5) Machine learning to assist in large-scale, activity-based synthetic cannabinoid receptor agonist screening of serum samplesL. Janssens, D. Boeckaerts, S. Hudson, D. Morozova, A. Cannaert, D.M. Wood, C. Wolfe, B. De Baets, M. Stock, P.I. Dargan and C.P. Stove(2022) CLINICAL CHEMISTRY. 68, 906-916. |
| (4) Identification of phage receptor-binding protein sequences with hidden Markov models
and an extreme gradient boosting classifier
D. Boeckaerts, M. Stock, B. De Baets and Y. Briers(2022) VIRUSES. 14, 1329. |
| (3) Digital phagograms: predicting phage infectivity through a multi-layer machine learning approachC. Lood, D. Boeckaerts, M. Stock, B. De Baets, R. Lavigne, V. Van Noort and Y. Briers(2022) CURRENT OPINION IN VIROLOGY. 52, 174-181. |
| (2) Crowdsourced mapping of unexplored target space of kinase inhibitorsA. Cichonska, B. Ravikumar, R. J. Allaway, F. Wan, S. Park, O. Isayev, S. Li, M. Mason, A. Lamb, Z. Tanoli, M. Jeon, S. Kim, M. Popova, S. Capuzzi, J. Zeng, K. Dang, G. Koytiger, J. Kang, C. I. Wells, T. M. Willson, M. Tan, C.-H. Huang, E. S. C. Shih, T.-M. Chen, C.-H. Wu, W.-Q. Fang, J.-Y. Chen, M.-J. Hwang, X. Wang, M. B. Guebila, B. Shamsaei, S. Singh, T. Nguyen, M. Karimi, D. Wu, Z. Wang, Y. Shen, H. Öztürk, E. Ozkirimli, A. Özgür, H. Lim, L. Xie, G. K. Kanev, A. J. Kooistra, B. A. Westerman, P. Terzopoulos, K. Ntagiantas, C. Fotis, L. Alexopoulos, D. Boeckaerts, M. Stock, B. De Baets, Y. Briers, F. Wan, S. Li, Y. Luo, H. Hu, J. Peng, J. Zeng, T. Dogan, A. S. Rifaioglu, H. Atas, R. C. Atalay, V. Atalay, M. J. Martin, S. Park, M. Jeon, S. Kim, J. Lee, S. Yun, B. Kim, B. Chang, J. Kang, M. Popova, S. Capuzzi, O. Isayev, G. Turu, Á. Misák, B. Szalai, L. Hunyady, M. Lienhard, P. Prasse, I. Bachmann, J. Ganzlin, G. Barel, R. Herwig, D. Oršolić, B. Lučić, V. Stepanić, T. Šmuc, T. I. Oprea, A. Schlessinger, D. H. Drewry, G. Stolovitzky, K. Wennerberg, J. Guinney, T. Aittokallio(2021) NATURE COMMUNICATIONS. 12, 3307. |
| (1) Predicting bacteriophage hosts based on sequences of annotated receptor-binding proteinsD. Boeckaerts, M. Stock, B. Criel, H. Gerstmans, B. De Baets and Y. Briers(2021) SCIENTIFIC REPORTS. 11, 1467. |