List of works by Alan A Chen

Advances in RNA molecular dynamics: a simulator's guide to RNA force fields

scientific article

Base-pair conformational switch modulates miR-34a targeting of Sirt1 mRNA

scientific article published on 27 May 2020

CoSIMS: An Optimized Trajectory-Based Collision Simulator for Ion Mobility Spectrometry

scientific article published on 10 May 2019

Complex Thermodynamic Behavior of Single-Stranded Nucleic Acid Adsorption to Graphene Surfaces.

scientific article

Cu(II)-Based Paramagnetic Probe to Study RNA-Protein Interactions by NMR.

scientific article

Free-energy landscape of a hyperstable RNA tetraloop

scientific article published on 27 May 2016

High-resolution reversible folding of hyperstable RNA tetraloops using molecular dynamics simulations

scientific article

Molecular simulation studies of monovalent counterion-mediated interactions in a model RNA kissing loop.

scientific article

Nature's Selection of Geranyl Group as a tRNA Modification: The Effects of Chain Length on Base-Pairing Specificity.

scientific article published on 18 April 2017

Parameters of monovalent ions in the AMBER-99 forcefield: assessment of inaccuracies and proposed improvements

scientific article published on 22 September 2007

Simulations of RNA Interactions with Monovalent Ions

article

Synthesis and base pairing studies of geranylated 2-thiothymidine, a natural variant of thymidine

scientific article published on 01 November 2015

Synthesis, base pairing and structure studies of geranylated RNA

scientific article (publication date: 27 July 2016)

Using in-cell SHAPE-Seq and simulations to probe structure-function design principles of RNA transcriptional regulators.

scientific article published on 21 April 2016

Water-bridged hydrogen bond formation between 5-hydroxylmethylcytosine (5-hmC) and its 3'-neighbouring bases in A- and B-form DNA duplexes.

scientific article published in November 2015

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