List of works - Matías Rodrigo Machado

A Coarse Grained Model for Atomic-Detailed DNA Simulations with Explicit Electrostatics

scientific article published on 14 April 2010

A hybrid all-atom/coarse grain model for multiscale simulations of DNA

scientific article published on 19 September 2011

Application of the DNA-specific stain methyl green in the fluorescent labeling of embryos

scientific article

Breathing, bubbling, and bending: DNA flexibility from multimicrosecond simulations

scientific article published on 03 August 2012

Exploring LacI-DNA dynamics by multiscale simulations using the SIRAH force field.

scientific article published on 2 September 2015

FRET biosensor uncovers cAMP nano-domains at β-adrenergic targets that dictate precise tuning of cardiac contractility

scientific article

Fat SIRAH: Coarse-Grained Phospholipids To Explore Membrane-Protein Dynamics

scientific article published on 05 September 2019

From quantum to subcellular scales: multi-scale simulation approaches and the SIRAH force field

scientific article published on 19 April 2019

Isoform-specific determinants in the HP1 binding to histone 3: insights from molecular simulations.

scientific article published on 4 November 2009

MD Simulations of Virus-Like Particles with Supra CG solvation affordable to desktop computers

scientific article published on 6 September 2017

Regulation of signaling directionality revealed by 3D snapshots of a kinase:regulator complex in action

scientific article published on 12 December 2016

SIRAH tools: mapping, backmapping and visualization of coarse-grained models

scientific article published on 14 January 2016

SIRAH: a structurally unbiased coarse-grained force field for proteins with aqueous solvation and long-range electrostatics.

scientific article published in February 2015

Split the Charge Difference in Two! A Rule of Thumb for Adding Proper Amounts of Ions in MD Simulations

scientific article published on 05 February 2020

Structure-based, in silico approaches for the development of novel cAMP FRET reporters

scientific article published on 01 January 2015

The SIRAH 2.0 Force Field: Altius, Fortius, Citius

scientific article published on 13 March 2019

Wrapping Up Viruses at Multiscale Resolution: Optimizing PACKMOL and SIRAH Execution for Simulating the Zika Virus

scientific article published on 08 January 2021

List of works by Matías Rodrigo Machado