A. Vangone

发表

Updates to the Integrated Protein-Protein Interaction Benchmarks: Docking Benchmark Version 5 and Affinity Benchmark Version 2.

Raphael A. G. Chaleil, Z. Weng, J. Fernández-Recio, 2015, Journal of molecular biology.

Distinguishing crystallographic from biological interfaces in protein complexes: role of intermolecular contacts and energetics for classification

Katarina Elez, Anna Vangone, A. Bonvin, 2018, BMC Bioinformatics.

Prevention of Vγ9Vδ2 T Cell Activation by a Vγ9Vδ2 TCR Nanobody

A. Bonvin, A. Vangone, T. D. de Gruijl, 2017, The Journal of Immunology.

Co-evolutionary Distance Prediction for Flexibility Prediction

C. Deane, Jiye Shi, S. Kelm, 2020, bioRxiv.

Ranking multiple docking solutions based on the conservation of inter‐residue contacts

Luigi Cavallo, Anna Vangone, Romina Oliva, 2013, Proteins.

Contacts-based prediction of binding affinity in protein–protein complexes

Anna Vangone, A. Bonvin, A. Vangone, 2015, eLife.

Structural Basis for Mutations of Human Aquaporins Associated to Genetic Diseases

A. Vangone, R. Oliva, L. Calvanese, 2018, International journal of molecular sciences.

The Prospects of Monte Carlo Antibody Loop Modelling on a Fault-Tolerant Quantum Computer

S. Adaszewski, J. Allcock, A. Vangone, 2021, Frontiers in Drug Discovery.

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

Alexandre M. J. J. Bonvin, Anna Vangone, João P. G. L. M. Rodrigues, 2016, Bioinform..

Fragment‐based modeling of membrane protein loops: Successes, failures, and prospects for the future

Sebastian Kelm, Jiye Shi, Anna Vangone, 2014, Proteins.

PRODIGY: A Contact-based Predictor of Binding Affinity in Protein-protein Complexes.

Anna Vangone, A. Bonvin, A. Vangone, 2017, Bio-protocol.

Prediction of homoprotein and heteroprotein complexes by protein docking and template‐based modeling: A CASP‐CAPRI experiment

Daisuke Kihara, Keehyoung Joo, Daisuke Kuroda, 2016, Proteins.

Prediction of Biomolecular Complexes

Luigi Cavallo, Alexandre M. J. J. Bonvin, Anna Vangone, 2017 .

A random forest classifier for protein–protein docking models

A. Vangone, Didier Barradas-Bautista, L. Cavallo, 2021, bioRxiv.

Paratope states in solution improve structure prediction and docking.

A. Vangone, G. Georges, K. Liedl, 2021, Structure.

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

Alexandre M. J. J. Bonvin, Anna Vangone, Cunliang Geng, 2018, Bioinform..

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

Irina S. Moreira, Anna Vangone, Cunliang Geng, 2017, Journal of Computer-Aided Molecular Design.

Exploring the interplay between experimental methods and the performance of predictors of binding affinity change upon mutations in protein complexes.

Alexandre M J J Bonvin, Anna Vangone, Cunliang Geng, 2016, Protein engineering, design & selection : PEDS.

Co-evolutionary distance predictions contain flexibility information

Sebastian Kelm, Jiye Shi, Charlotte M. Deane, 2021, Bioinform..

COCOMAPS: a web application to analyze and visualize contacts at the interface of biomolecular complexes

Vittorio Scarano, Raffaele Spinelli, Anna Vangone, 2011, Bioinform..

A recurrent Gly43Asp substitution in coagulation Factor X rigidifies its catalytic pocket and impairs catalytic activity and intracellular trafficking.

A. Vangone, L. Cavallo, R. Oliva, 2014, Thrombosis research.

Biological vs. Crystallographic Protein Interfaces: An Overview of Computational Approaches for Their Classification

Katarina Elez, Alexandre M. J. J. Bonvin, Anna Vangone, 2020 .

Antibody loop modelling on a quantum computer

S. Adaszewski, J. Allcock, A. Vangone, 2021 .

Analysis of the interface variability in NMR structure ensembles of protein-protein complexes.

Anna Vangone, Romina Oliva, A. Vangone, 2016, Journal of structural biology.

Structural Basis for the Recognition in an Idiotype-Anti-Idiotype Antibody Complex Related to Celiac Disease

Luigi Cavallo, Anna Vangone, Safwat Abdel-Azeim, 2014, PloS one.

PRODIGY-crystal: a web-tool for classification of biological interfaces in protein complexes

Alexandre M J J Bonvin, Katarina Elez, Brian Jiménez-García, 2019, Bioinform..

Distinguishing crystallographic from biological interfaces in protein complexes: role of intermolecular contacts and energetics for classification

A. Bonvin, A. Vangone, Katarina Elez, 2018, BMC Bioinformatics.

Sense and simplicity in HADDOCK scoring: Lessons from CASP‐CAPRI round 1

G C P van Zundert, M Trellet, Z Kurkcuoglu, 2016, Proteins.

An overview of data-driven HADDOCK strategies in CAPRI rounds 38-45

Irina S. Moreira, Alexandre M. J. J. Bonvin, Anna Vangone, 2019, bioRxiv.

MDcons: Intermolecular contact maps as a tool to analyze the interface of protein complexes from molecular dynamics trajectories

Anna Vangone, Safwat Abdel-Azeim, Edrisse Chermak, 2014, BMC Bioinformatics.

Using a consensus approach based on the conservation of inter‐residue contacts to rank CAPRI models

Luigi Cavallo, Anna Vangone, Romina Oliva, 2013, Proteins.

CONS-COCOMAPS: a novel tool to measure and visualize the conservation of inter-residue contacts in multiple docking solutions

Anna Vangone, Luigi Cavallo, Romina Oliva, 2012, BMC Bioinformatics.

D936Y and Other Mutations in the Fusion Core of the SARS-CoV-2 Spike Protein Heptad Repeat 1: Frequency, Geographical Distribution, and Structural Effect

A. Vangone, L. Cavallo, R. Oliva, 2021, Molecules.

In silico study of protein-protein interactions

Anna Vangone, A. Vangone, 2013 .

Sense and Simplicity in HADDOCK Scoring: Lessons from CASP‐CAPRI (page 418)

M. Nellen, E. Karaca, P. Kastritis, 2017, Proteins.

PRODIGY: A Contact-based Predictor of Binding Affinity in Protein-protein Complexes.

A. Bonvin, A. Vangone, 2017, Bio-protocol.

COCOMAPS: a web application to analyze and visualize contacts at the interface of biomolecular complexes

A. Vangone, L. Cavallo, R. Oliva, 2011, Bioinform..