Anna Vangone

发表

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

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

iSEE: Interface Structure, Evolution and Energy-based machine learning predictor of binding affinity changes upon mutations

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

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

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

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.

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.

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..

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..

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.

CONSRANK: a server for the analysis, comparison and ranking of docking models based on inter-residue contacts

Vittorio Scarano, Anna Vangone, Andrea Petta, 2015, Bioinform..

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

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

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.

HADDOCK docking models

Alexandre M. J. J. Bonvin, Anna Vangone, 2015 .

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

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

Co-evolutionary distance predictions contain flexibility information

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

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

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

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.

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.

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

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

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

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

Erratum: Sense and simplicity in HADDOCK scoring: Lessons from CASP-CAPRI round 1 : HADDOCK in CASP-CAPRI Round 1 (Proteins: Structure, Function, and Bioinformatics, (2017), 85, 3, (417-423), 10.1002/prot.25198)

Anna Vangone, João P. G. L. M. Rodrigues, Alexandre M. J. J. Bonvin, 2017 .

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

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

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

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