Ugo Bastolla

发表

Testing a new Monte Carlo algorithm for protein folding

Walter Nadler, Peter Grassberger, Ugo Bastolla, 1998 .

An efficient conformational sampling method for homology modeling

Alejandra Leo-Macias, Daniel Zerbino, Ugo Bastolla, 2008, Proteins.

The Influence of Protein Stability on Sequence Evolution: Applications to Phylogenetic Inference.

Ugo Bastolla, Miguel Arenas, U. Bastolla, 2018, Methods in molecular biology.

Torsional Network Model (TNM) program

Ugo Bastolla, 2018 .

Protein evolution along phylogenetic histories under structurally constrained substitution models

David Posada, Helena G. Dos Santos, Ugo Bastolla, 2013, Bioinform..

SABERTOOTH: protein structural alignment based on a vectorial structure representation

Markus Porto, Ugo Bastolla, Florian Teichert, 2007, BMC Bioinformatics.

Learning structural bioinformatics and evolution with a snake puzzle

Gonzalo S. Nido, Ugo Bastolla, Ludovica Bachschmid-Romano, 2016, PeerJ Comput. Sci..

A framework for protein structure prediction on the grid

Eduardo Huedo, Rubén S. Montero, Ignacio Martín Llorente, 2009, New Generation Computing.

Editorial overview: Proteins: bridging theory and experiment.

Ugo Bastolla, Igor N Berezovsky, 2017, Current opinion in structural biology.

Predicted dynamical couplings of protein residues characterize catalysis, transport and allostery

Helena G. Dos Santos, Ugo Bastolla, Alvaro Alfayate, 2019, Bioinform..

Learning protein folding and evolution with a snake puzzle

Gonzalo S. Nido, Ugo Bastolla, Ludovica Bachschmid-Romano, 2016, PeerJ Prepr..

Computational proteomics on the grid

Eduardo Huedo, Rubén S. Montero, Ignacio Martín Llorente, 2009, New Generation Computing.

Mutation Bias Favors Protein Folding Stability in the Evolution of Small Populations

Raul Mendez, Markus Porto, Ugo Bastolla, 2010, PLoS Comput. Biol..

Protein Structure Alignment through a Contact Topology Profile using SABERTOOTH

Markus Porto, Ugo Bastolla, Florian Teichert, 2008, German Conference on Bioinformatics.

Cross-Over between Discrete and Continuous Protein Structure Space: Insights into Automatic Classification and Networks of Protein Structures

Angel R. Ortiz, Ugo Bastolla, Alberto Pascual-García, 2009, PLoS Comput. Biol..

High quality protein sequence alignment by combining structural profile prediction and profile alignment using SABERTOOTH

Markus Porto, Ugo Bastolla, Florian Teichert, 2010, BMC Bioinformatics.

Neutral evolution of model proteins: diffusion in sequence space and overdispersion.

Michele Vendruscolo, H. Eduardo Roman, Ugo Bastolla, 1998, Journal of theoretical biology.

Quantifying the evolutionary divergence of protein structures: The role of function change and function conservation

Ugo Bastolla, Alberto Pascual-García, David Abia, 2010, Proteins.

Open Access Research Article Comparison of Translation Loads for Standard and Alternative Genetic Codes

Markus Porto, Ugo Bastolla, U. Bastolla, 2022 .

Attraction basins in discretized maps

Giorgio Parisi, Ugo Bastolla, 1997 .

Statistical Properties of Neutral Evolution

Michele Vendruscolo, Markus Porto, Ugo Bastolla, 2002, Journal of Molecular Evolution.

Reductive genome evolution in Buchnera aphidicola

Alfonso Valencia, Andrés Moya, Ugo Bastolla, 2003, Proceedings of the National Academy of Sciences of the United States of America.

Biodiversity in model ecosystems, I: coexistence conditions for competing species.

Michael Lässig, Angelo Valleriani, Ugo Bastolla, 2005, Journal of theoretical biology.

A protein evolution model with independent sites that reproduces site-specific amino acid distributions from the Protein Data Bank

Michele Vendruscolo, H. Eduardo Roman, Markus Porto, 2006, BMC Evolutionary Biology.

Torsional network model: normal modes in torsion angle space better correlate with conformation changes in proteins.

Ugo Bastolla, U. Bastolla, R. Méndez, 2010, Physical review letters.

Biodiversity in model ecosystems, II: species assembly and food web structure.

Michael Lässig, Angelo Valleriani, Ugo Bastolla, 2005, Journal of theoretical biology.

Phase diagram of random heteropolymers: Replica approach and application of a new Monte Carlo algorithm

Peter Grassberger, Ugo Bastolla, Helge Frauenkron, 2000 .

The architecture of mutualistic networks minimizes competition and increases biodiversity

Jordi Bascompte, Ugo Bastolla, Miguel A. Fortuna, 2009, Nature.

How lethal is the novel coronavirus, and how many undetected cases there are? The importance of being tested.

Ugo Bastolla, 2020, medRxiv.

Prediction of site-specific amino acid distributions and limits of divergent evolutionary changes in protein sequences.

Michele Vendruscolo, Markus Porto, Ugo Bastolla, 2004, Molecular biology and evolution.

Genomic determinants of protein folding thermodynamics in prokaryotic organisms.

Andrés Moya, Ugo Bastolla, Roeland C H J van Ham, 2004, Journal of molecular biology.

Computing protein dynamics from protein structure with elastic network models

Ugo Bastolla, U. Bastolla, 2014 .

Dynamics and topology of species networks

Michael Lässig, Susanna C. Manrubia, Angelo Valleriani, 2002 .

Connectivity of Neutral Networks, Overdispersion, and Structural Conservation in Protein Evolution

Markus Porto, Ugo Bastolla, U. Bastolla, 2001, Journal of Molecular Evolution.

Detecting Selection on Protein Stability through Statistical Mechanical Models of Folding and Evolution

Ugo Bastolla, U. Bastolla, 2014, Biomolecules.

Reconstruction of protein structures from a vectorial representation.

Michele Vendruscolo, Markus Porto, Ugo Bastolla, 2004, Physical review letters.

Detecting selection for negative design in proteins through an improved model of the misfolded state

Markus Porto, Ugo Bastolla, Jonas Minning, 2013, Proteins.

Structural Approaches to Sequence Evolution

Michele Vendruscolo, H. Eduardo Roman, Markus Porto, 2007 .