Aleksei Aksimentiev

Molecular Biology · 2005–2020

A researcher in the Science corpus: 7 papers; trusts 5 researchers and is trusted by 2 researchers here, as inferred from the citation graph.

Subfields

• Molecular Biology — 51 citations into it; #11,752 of 17,773 by trust here, #9,030 by citations
• Biomedical Engineering — 21 citations into it; #6,959 of 10,734 by trust here, #4,726 by citations
• Computational Mechanics — 7 citations into it
• Electrical and Electronic Engineering — 6 citations into it

Whom Aleksei Aksimentiev trusts overall

Their strongest outbound trust, strongest first, inferred from their citations.

1. A. Brunger
2. Amit Meller
3. Alexander D. MacKerell
4. L. Nivón
5. W. L. Jorgensen
6. W. Vercoutere
7. Guillaume Lamoureux
8. S. Howorka

Who trusts Aleksei Aksimentiev overall

1. James C. Phillips
2. Michael Zwolak
3. M. Di Ventra
4. S. Howorka
5. Rosemary Braun

Papers from Aleksei Aksimentiev's perspective

Ordered by how strongly the researchers Aleksei Aksimentiev trusts endorse each paper. Same corpus, a different order for every researcher.

1. Ion-beam sculpting at nanometre length scales (Nature)
2. Voltage-driven DNA translocations through a nanopore. (Physical Review Letters)
3. Rapid nanopore discrimination between single polynucleotide molecules. (Proceedings of the National Academy of Sciences of the United States of America)
4. All-atom empirical potential for molecular modeling and dynamics studies of proteins.
5. VMD: visual molecular dynamics.
6. ANI-1: an extensible neural network potential with DFT accuracy at force field computational cost
7. A smooth particle mesh Ewald method
8. Calculating free energies using average force
9. Free energy calculation from steered molecular dynamics simulations using Jarzynski's equality
10. Stochastic boundary conditions for molecular dynamics simulations of ST2 water

Their papers

• Scalable molecular dynamics on CPU and GPU architectures with NAMD. (2020) — 2,675 citations
• Exploring transmembrane transport through α -hemolysin with grid-steered molecular dynamics (2007) — 138 citations
• Orientation discrimination of single-stranded DNA inside the α-hemolysin membrane channel (2005) — 287 citations
• Imaging alpha-hemolysin with molecular dynamics: ionic conductance, osmotic permeability, and the electrostatic potential map. (2005) — 662 citations
• Simulation of the electric response of DNA translocation through a semiconductor nanopore–capacitor (2006) — 152 citations
• The Hinge Region Strengthens the Nonspecific Interaction between Lac-Repressor and DNA: A Computer Simulation Study (2016) — 7 citations
• Improved Parametrization of Li+, Na+, K+, and Mg2+ Ions for All-Atom Molecular Dynamics Simulations of Nucleic Acid Systems (2012) — 337 citations