Li C. Xue

According to our database, Li C. Xue authored at least 14 papers between 2008 and 2024.

Collaborative distances:

• Dijkstra number of four.
• Erdős number of four.

2024

DeepRank2: Mining 3D Protein Structures with Geometric Deep Learning.

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

J. Open Source Softw., April, 2024

2023

GradPose: a very fast and memory-efficient gradient descent-based tool for superimposing millions of protein structures from computational simulations.

Daniel-T. Rademaker, Kevin J. van Geemen, Li C. Xue

Bioinform., August, 2023

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

Manon Réau, Nicolas Renaud, Li C. Xue, Alexandre M. J. J. Bonvin

Bioinform., January, 2023

2020

iScore: An MPI supported software for ranking protein-protein docking models based on a random walk graph kernel and support vector machines.

Nicolas Renaud, Yong Jung, Vasant G. Honavar, Cunliang Geng, Alexandre M. J. J. Bonvin, Li C. Xue

SoftwareX, 2020

iScore: a novel graph kernel-based function for scoring protein-protein docking models.

Cunliang Geng, Yong Jung, Nicolas Renaud, Vasant G. Honavar, Alexandre M. J. J. Bonvin, Li C. Xue

Bioinform., 2020

2019

Protein-ligand pose and affinity prediction: Lessons from D3R Grand Challenge 3.

Panagiotis I. Koukos, Li C. Xue, Alexandre M. J. J. Bonvin

J. Comput. Aided Mol. Des., 2019

Large-scale prediction of binding affinity in protein-small ligand complexes: the PRODIGY-LIG web server.

Anna Vangone, Jörg Schaarschmidt, Panagiotis I. Koukos, Cunliang Geng, Nevia Citro, Mikael E. Trellet, Li C. Xue, Alexandre M. J. J. Bonvin

Bioinform., 2019

2018

Performance of HADDOCK and a simple contact-based protein-ligand binding affinity predictor in the D3R Grand Challenge 2.

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

J. Comput. Aided Mol. Des., 2018

2017

Template-based protein-protein docking exploiting pairwise interfacial residue restraints.

Li C. Xue, João P. G. L. M. Rodrigues, Drena Dobbs, Vasant G. Honavar, Alexandre M. J. J. Bonvin

Briefings Bioinform., 2017

2016

PRODIGY: a web server for predicting the binding affinity of protein-protein complexes.

Li C. Xue, João P. G. L. M. Rodrigues, Panagiotis L. Kastritis, Alexandre M. J. J. Bonvin, Anna Vangone

Bioinform., 2016

2011

HomPPI: A Class of Sequence Homology Based Protein-Protein Interface Prediction Methods.

Li C. Xue, Drena Dobbs, Vasant G. Honavar

BMC Bioinform., 2011

Improving protein-RNA interface prediction by combining sequence homology based method with a naive Bayes classifier: preliminary results.

Li C. Xue, Rasna R. Walia, Yasser El-Manzalawy, Drena Dobbs, Vasant G. Honavar

Proceedings of the ACM International Conference on Bioinformatics, 2011

Ranking docked models of protein-protein complexes using predicted partner-specific protein-protein interfaces: a preliminary study.

Li C. Xue, Rafael A. Jordan, Yasser El-Manzalawy, Drena Dobbs, Vasant G. Honavar

Proceedings of the ACM International Conference on Bioinformatics, 2011

2008

Striking Similarities in Diverse Telomerase Proteins Revealed by Combining Structure Prediction and Machine Learning Approaches.

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

Proceedings of the Biocomputing 2008, 2008