| CURVES+ web server for analyzing and visualizing the helical, backbone and groove parameters of nucleic acid structures C Blanchet, M Pasi, K Zakrzewska, R Lavery Nucleic acids research 39 (suppl_2), W68-W73, 2011 | 223 | 2011 |
| μABC: a systematic microsecond molecular dynamics study of tetranucleotide sequence effects in B-DNA M Pasi, JH Maddocks, D Beveridge, TC Bishop, DA Case, T Cheatham III, ... Nucleic acids research 42 (19), 12272-12283, 2014 | 207 | 2014 |
| Analyzing ion distributions around DNA R Lavery, JH Maddocks, M Pasi, K Zakrzewska Nucleic acids research 42 (12), 8138-8149, 2014 | 106 | 2014 |
| Analyzing ion distributions around DNA: sequence-dependence of potassium ion distributions from microsecond molecular dynamics M Pasi, JH Maddocks, R Lavery Nucleic acids research 43 (4), 2412-2423, 2015 | 98 | 2015 |
| Expanding the repertoire of DNA shape features for genome-scale studies of transcription factor binding J Li, JM Sagendorf, TP Chiu, M Pasi, A Perez, R Rohs Nucleic acids research 45 (22), 12877-12887, 2017 | 86 | 2017 |
| xPyder: a PyMOL plugin to analyze coupled residues and their networks in protein structures. M Pasi, M Tiberti, A Arrigoni, E Papaleo Journal of chemical information and modeling 52 (7), 1865-1874, 2012 | 86 | 2012 |
| Protein flexibility in psychrophilic and mesophilic trypsins. Evidence of evolutionary conservation of protein dynamics in trypsin-like serine-proteases E Papaleo, M Pasi, L Riccardi, I Sambi, P Fantucci, L De Gioia FEBS letters 582 (6), 1008-1018, 2008 | 67 | 2008 |
| PaLaCe: A coarse-grain protein model for studying mechanical properties M Pasi, R Lavery, N Ceres Journal of chemical theory and computation 9 (1), 785-793, 2013 | 59 | 2013 |
| Molecular determinants of enzyme cold adaptation: comparative structural and computational studies of cold-and warm-adapted enzymes E Papaleo, M Tiberti, G Invernizzi, M Pasi, V Ranzani Current Protein and Peptide Science 12 (7), 657-683, 2011 | 48 | 2011 |
| Molecular dynamics of mesophilic-like mutants of a cold-adapted enzyme: insights into distal effects induced by the mutations E Papaleo, M Pasi, M Tiberti, L De Gioia PLoS One 6 (9), e24214, 2011 | 45 | 2011 |
| cgDNA: a software package for the prediction of sequence-dependent coarse-grain free energies of B-form DNA D Petkevičiūtė, M Pasi, O Gonzalez, JH Maddocks Nucleic acids research 42 (20), e153-e153, 2014 | 43 | 2014 |
| The static and dynamic structural heterogeneities of B-DNA: extending Calladine–Dickerson rules PD Dans, A Balaceanu, M Pasi, AS Patelli, D Petkevičiūtė, J Walther, ... Nucleic acids research 47 (21), 11090-11102, 2019 | 37 | 2019 |
| Structure and dynamics of DNA loops on nucleosomes studied with atomistic, microsecond-scale molecular dynamics M Pasi, R Lavery Nucleic acids research 44 (11), 5450-5456, 2016 | 36 | 2016 |
| Dynamic properties of a psychrophilic α-amylase in comparison with a mesophilic homologue M Pasi, L Riccardi, P Fantucci, L De Gioia, E Papaleo The Journal of Physical Chemistry B 113 (41), 13585-13595, 2009 | 29 | 2009 |
| DNA minicircles clarify the specific role of DNA structure on retroviral integration M Pasi, D Mornico, S Volant, A Juchet, J Batisse, C Bouchier, V Parissi, ... Nucleic Acids Research 44 (16), 7830-7847, 2016 | 24 | 2016 |
| The role of unconventional hydrogen bonds in determining BII propensities in B-DNA A Balaceanu, M Pasi, PD Dans, A Hospital, R Lavery, M Orozco The journal of physical chemistry letters 8 (1), 21-28, 2017 | 22 | 2017 |
| Analyzing DNA curvature and its impact on the ionic environment: application to molecular dynamics simulations of minicircles M Pasi, K Zakrzewska, JH Maddocks, R Lavery Nucleic acids research 45 (7), 4269-4277, 2017 | 21 | 2017 |
| Overview of the nucleic-acid binding properties of the HIV-1 nucleocapsid protein in its different maturation states A Mouhand, M Pasi, M Catala, L Zargarian, A Belfetmi, P Barraud, ... Viruses 12 (10), 1109, 2020 | 18 | 2020 |
| Sequence-dependent structural properties of B-DNA: what have we learned in 40 years? G Da Rosa, L Grille, V Calzada, K Ahmad, JP Arcon, F Battistini, G Bayarri, ... Biophysical Reviews, 1-11, 2021 | 16 | 2021 |
| A protein solvation model based on residue burial N Ceres, M Pasi, R Lavery Journal of Chemical Theory and Computation 8 (6), 2141-2144, 2012 | 15 | 2012 |
Richard LaveryIBCP, CNRS / University of LyonVerified email at ibcp.fr
