Li C. Xue

14 papers Misc 1Journal 11Unranked 2
YearRankTypeTitle / Venue / Authors
2024 J jnl
DeepRank2: Mining 3D Protein Structures with Geometric Deep Learning.
J. Open Source Softw.
Giulia Crocioni, Dani L. Bodor, Coos Baakman, Farzaneh M. Parizi, Daniel-T. Rademaker, Gayatri Ramakrishnan, Sven van der Burg, Dario F. Marzella, João M. C. Teixeira, Li C. Xue
2023 J jnl
DeepRank-GNN: a graph neural network framework to learn patterns in protein-protein interfaces.
Bioinform.
Manon Réau, Nicolas Renaud, Li C. Xue, Alexandre M. J. J. Bonvin
2023 J jnl
GradPose: a very fast and memory-efficient gradient descent-based tool for superimposing millions of protein structures from computational simulations.
Bioinform.
Daniel-T. Rademaker, Kevin J. van Geemen, Li C. Xue
2020 J jnl
iScore: An MPI supported software for ranking protein-protein docking models based on a random walk graph kernel and support vector machines.
SoftwareX
Nicolas Renaud, Yong Jung, Vasant G. Honavar, Cunliang Geng, Alexandre M. J. J. Bonvin, Li C. Xue
2020 J jnl
iScore: a novel graph kernel-based function for scoring protein-protein docking models.
Bioinform.
Cunliang Geng, Yong Jung, Nicolas Renaud, Vasant G. Honavar, Alexandre M. J. J. Bonvin, Li C. Xue
2019 J jnl
Large-scale prediction of binding affinity in protein-small ligand complexes: the PRODIGY-LIG web server.
Bioinform.
Anna Vangone, Jörg Schaarschmidt, Panagiotis I. Koukos, Cunliang Geng, Nevia Citro, Mikael E. Trellet, Li C. Xue, Alexandre M. J. J. Bonvin
2019 J jnl
Protein-ligand pose and affinity prediction: Lessons from D3R Grand Challenge 3.
J. Comput. Aided Mol. Des.
Panagiotis I. Koukos, Li C. Xue, Alexandre M. J. J. Bonvin
2018 J jnl
Performance of HADDOCK and a simple contact-based protein-ligand binding affinity predictor in the D3R Grand Challenge 2.
J. Comput. Aided Mol. Des.
Zeynep Kurkcuoglu, Panagiotis I. Koukos, Nevia Citro, Mikael E. Trellet, João P. G. L. M. Rodrigues, Irina S. Moreira, Jorge Roel-Touris, Adrien S. J. Melquiond, Cunliang Geng, Jörg Schaarschmidt, Li C. Xue, Anna Vangone, Alexandre M. J. J. Bonvin
2017 J jnl
Template-based protein-protein docking exploiting pairwise interfacial residue restraints.
Briefings Bioinform.
Li C. Xue, João P. G. L. M. Rodrigues, Drena Dobbs, Vasant G. Honavar, Alexandre M. J. J. Bonvin
2016 J jnl
PRODIGY: a web server for predicting the binding affinity of protein-protein complexes.
Bioinform.
Li C. Xue, João P. G. L. M. Rodrigues, Panagiotis L. Kastritis, Alexandre M. J. J. Bonvin, Anna Vangone
2011 J jnl
HomPPI: A Class of Sequence Homology Based Protein-Protein Interface Prediction Methods.
BMC Bioinform.
Li C. Xue, Drena Dobbs, Vasant G. Honavar
2011 — conf
Improving protein-RNA interface prediction by combining sequence homology based method with a naive Bayes classifier: preliminary results.
BCB
Li C. Xue, Rasna R. Walia, Yasser El-Manzalawy, Drena Dobbs, Vasant G. Honavar
2011 — conf
Ranking docked models of protein-protein complexes using predicted partner-specific protein-protein interfaces: a preliminary study.
BCB
Li C. Xue, Rafael A. Jordan, Yasser El-Manzalawy, Drena Dobbs, Vasant G. Honavar
2008 Misc conf
Striking Similarities in Diverse Telomerase Proteins Revealed by Combining Structure Prediction and Machine Learning Approaches.
Pacific Symposium on Biocomputing
Jae-Hyung Lee, Michael Hamilton, Colin Gleeson, Cornelia Caragea, Peter Zaback, Jeffry D. Sander, Li C. Xue, Feihong Wu, Michael Terribilini, Vasant G. Honavar, Drena Dobbs