Xue, Li C.

DeepRank-GNN: a graph neural network framework to learn patterns in protein–protein interfaces

Réau, M., Renaud, N., Xue, L. C., & Bonvin, A. M. J. J. (2023) · Bioinformatics

Computational Drug Discovery MethodsProtein Structure and Dynamics

Cited by 190

DeepRank-GNN: A Graph Neural Network Framework to Learn Patterns in Protein-Protein Interfaces

Réau, M., Renaud, N., Xue, L. C., & Bonvin, A. M. J. J. (2021) · Bioinformatics

Computational Drug Discovery MethodsProtein Structure and Dynamics

Cited by 190

RNABindRPlus: A Predictor that Combines Machine Learning and Sequence Homology-Based Methods to Improve the Reliability of Predicted RNA-Binding Residues in Proteins

Walia, R. R., Xue, L. C., Wilkins, K., El-Manzalawy, Y., Dobbs, D., & Honavar, V. (2014) · PLoS ONE

Machine Learning in BioinformaticsProtein Structure and Dynamics

Cited by 132

DeepRank: a deep learning framework for data mining 3D protein-protein interfaces

Renaud, N., Geng, C., Georgievska, S., Ambrosetti, F., Ridder, L., Marzella, D. F., Réau, M. F., Bonvin, A. M. J. J., & Xue, L. C. (2021) · Nature Communications

Protein Structure and DynamicsMachine Learning in Bioinformatics

Cited by 125

Blind prediction of homo- and hetero-protein complexes: the CASP13-CAPRI experiment

Lensink, M. F., Brysbaert, G., Nadzirin, N., Velankar, S., Chaleil, R. A. G., Gerguri, T., Bates, P. A., Laine, E., Carbone, A., Grudinin, S., et al. (2019) · Proteins Structure Function and Bioinformatics

Protein Structure and DynamicsEnzyme Structure and Function

Cited by 122

iSEE: Interface structure, evolution, and energy-based machine learning predictor of binding affinity changes upon mutations

Geng, C., Vangone, A., Folkers, G. E., Xue, L. C., & Bonvin, A. M. J. J. (2019) · Proteins: Structure, Function, and Bioinformatics

Protein Structure and DynamicsMachine Learning in Bioinformatics

Cited by 82

Improving generalizability and data efficiency for MHC-I binding peptide predictions through structure-based geometric deep learning

Xue, L., Marzella, D., Crocioni, G., Radusinović, T., Lepikhov, D., Severin, H., Bodor, D., Rademaker, D., Lin, C., Georgievska, S., et al. (2024) · Communications Biology

vaccines and immunoinformatics approachesMachine Learning in Bioinformatics

Cited by 18

PANDORA v2.0: Benchmarking peptide-MHC II models and software improvements

Parizi, F. M., Marzella, D. F., Ramakrishnan, G., ‘t Hoen, P. A. C., Karimi-Jafari, M. H., & Xue, L. C. (2023) · Frontiers in Immunology

vaccines and immunoinformatics approachesProtein Structure and Dynamics

Cited by 14