Manuel Rueda
Manuel Rueda
Centro Nacional de Análisis Genómico, CNAG
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Status of GPCR modeling and docking as reflected by community-wide GPCR Dock 2010 assessment
I Kufareva, M Rueda, V Katritch, RC Stevens, R Abagyan
Structure 19 (8), 1108-1126, 2011
Community-wide assessment of GPCR structure modelling and ligand docking: GPCR Dock 2008
M Michino, E Abola, GPCR Dock 2008 Participants, CL Brooks III, ...
Nature Reviews Drug Discovery 8 (6), 455-463, 2009
A consensus view of protein dynamics
M Rueda, C Ferrer-Costa, T Meyer, A Pérez, J Camps, A Hospital, ...
Proceedings of the National Academy of Sciences 104 (3), 796-801, 2007
Whole-genome sequencing of a healthy aging cohort
GA Erikson, DL Bodian, M Rueda, B Molparia, ER Scott, ...
Cell 165 (4), 1002-1011, 2016
Correlated ab initio study of nucleic acid bases and their tautomers in the gas phase, in a microhydrated environment and in aqueous solution Part 1. Cytosine
SA Trygubenko, TV Bogdan, M Rueda, M Orozco, FJ Luque, J Šponer, ...
Physical Chemistry Chemical Physics 4 (17), 4192-4203, 2002
Recipes for the selection of experimental protein conformations for virtual screening
M Rueda, G Bottegoni, R Abagyan
Journal of chemical information and modeling 50 (1), 186-193, 2010
Thorough validation of protein normal mode analysis: a comparative study with essential dynamics
M Rueda, P Chacón, M Orozco
Structure 15 (5), 565-575, 2007
GPCR 3D homology models for ligand screening: lessons learned from blind predictions of adenosine A2a receptor complex
V Katritch, M Rueda, PCH Lam, M Yeager, R Abagyan
Proteins: Structure, Function, and Bioinformatics 78 (1), 197-211, 2010
The structure and dynamics of DNA in the gas phase
M Rueda, SG Kalko, FJ Luque, M Orozco
Journal of the American Chemical Society 125 (26), 8007-8014, 2003
MoDEL (Molecular Dynamics Extended Library): a database of atomistic molecular dynamics trajectories
T Meyer, M D'Abramo, M Rueda, C Ferrer-Costa, A Pérez, O Carrillo, ...
Structure 18 (11), 1399-1409, 2010
Consistent improvement of cross-docking results using binding site ensembles generated with elastic network normal modes
M Rueda, G Bottegoni, R Abagyan
Journal of chemical information and modeling 49 (3), 716-725, 2009
GA4GH: International policies and standards for data sharing across genomic research and healthcare
HL Rehm, AJH Page, L Smith, JB Adams, G Alterovitz, LJ Babb, ...
Cell genomics 1 (2), 2021
Essential dynamics: a tool for efficient trajectory compression and management
T Meyer, C Ferrer-Costa, A Pérez, M Rueda, A Bidon-Chanal, FJ Luque, ...
Journal of Chemical Theory and Computation 2 (2), 251-258, 2006
Exploring the counterion atmosphere around DNA: what can be learned from molecular dynamics simulations?
M Rueda, E Cubero, CA Laughton, M Orozco
Biophysical journal 87 (2), 800-811, 2004
FlexServ: an integrated tool for the analysis of protein flexibility
J Camps, O Carrillo, A Emperador, L Orellana, A Hospital, M Rueda, ...
Bioinformatics 25 (13), 1709-1710, 2009
G-quadruplexes can maintain their structure in the gas phase
M Rueda, FJ Luque, M Orozco
Journal of the American Chemical Society 128 (11), 3608-3619, 2006
Systematic exploitation of multiple receptor conformations for virtual ligand screening
G Bottegoni, W Rocchia, M Rueda, R Abagyan, A Cavalli
PloS one 6 (5), e18845, 2011
Approaching elastic network models to molecular dynamics flexibility
L Orellana, M Rueda, C Ferrer-Costa, JR Lopez-Blanco, P Chacón, ...
Journal of Chemical Theory and Computation 6 (9), 2910-2923, 2010
Re-analysis of whole-exome sequencing data uncovers novel diagnostic variants and improves molecular diagnostic yields for sudden death and idiopathic diseases
EL Salfati, EG Spencer, SE Topol, ED Muse, M Rueda, JR Lucas, ...
Genome medicine 11, 1-8, 2019
The European genome-phenome archive in 2021
MA Freeberg, LA Fromont, T D’Altri, AF Romero, JI Ciges, A Jene, G Kerry, ...
Nucleic Acids Research 50 (D1), D980-D987, 2022
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