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2013

BioSuper: a web tool for the superimposition of biomolecules and assemblies with rotational symmetry.

BMC structural biology

M. Rueda, M. Orozco, M. Totrov, and R. Abagyan
Exploring early stages of the chemical unfolding of proteins at the proteome scale.

PLoS computational biology

M. Candotti, A. Pérez, C. Ferrer-Costa, M. Rueda, T. Meyer, J L. Gelpí, and M. Orozco

2011

A systematic study of the energetics involved in structural changes upon association and connectivity in protein interaction networks.

Structure (London, England : 1993)

A. Stein, M. Rueda, A. Panjkovich, M. Orozco, and P. Aloy
A systematic study of the energetics involved in structural changes upon association and connectivity in protein-protein interaction networks

A. Stein, M. Rueda, A. Panjkovich, M. Orozco, and P. Aloy

2010

MoDEL (Molecular Dynamics Extended Library): a database of atomistic molecular dynamics trajectories.

Structure (London, England : 1993)

T. Meyer, M. D'Abramo, A. Hospital, M. Rueda, C. Ferrer-Costa, A. Pérez, O. Carrillo, J. Camps, C. Fenollosa, D. Repchevsky, J L. Gelpí, and M. Orozco
MoDEL (Molecular Dynamics Extended Library). A database of atomistic molecular dynamics simulations

T. Meyer, M. D'Abramo, A. Hospital, M. Rueda, C. Ferrer-Costa, A. Pérez, O. Carrillo, C. Fenollosa, D. Perchevsky, J L. Gelpí, and M. Orozco
Approaching elastic network models to atomistic molecular dynamics

L. Orellana, M. Rueda, C. Ferrer-Costa, JR. López-Blanco, P. Chacón, and M. Orozco

2009

FlexServ: an integrated tool for the analysis of protein flexibility.

Bioinformatics (Oxford, England)

J. Camps, O. Carrillo, A. Emperador, L. Orellana, A. Hospital, M. Rueda, D. Cicin-Sain, M. D'Abramo, J L. Gelpí, and M. Orozco
FlexServ: An integrated tool for the analysis of protein flexibility

J. Camps, O. Carrillo, A. Emperador, L. Orellana, A. Hospital, M. Rueda, D. Cicin, M. D'Abramo, J L. Gelpí, and M. Orozco
Comparison of molecular dynamics and superfamily spaces of protein domain deformation

JA. Velázquez-Muriel, M. Rueda, I. Cuesta, A. Pascual-Montano, M. Orozco, and JM. Carazo

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