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Materials Science

D-Index
72
Citations
17499
World Ranking
4075
National Ranking
1100

Overview

Aleksei Aksimentiev is affiliated with the University of Illinois at Urbana-Champaign in the United States. Their research spans multiple intersecting domains within biochemistry, genetics, molecular biology, and engineering. The body of work demonstrates focus on molecular and biomedical engineering challenges, utilizing computational and experimental techniques.

The primary fields of study for Aksimentiev include Biochemistry, Genetics and Molecular Biology, and Engineering. More specifically, their research interests lie in subfields such as Molecular Biology, Biomedical Engineering, Materials Chemistry, Electrical and Electronic Engineering, and Computational Mechanics.

The scientist's work frequently addresses topics including nanopore and nanochannel transport studies, advanced biosensing and bioanalysis techniques, RNA interference and gene delivery, DNA and nucleic acid chemistry, RNA and protein synthesis mechanisms, ion-surface interactions and analysis, and microfluidic and capillary electrophoresis applications.

Publication activity is notable in several prominent venues. Frequent publication outlets include:

  • Biophysical Journal
  • bioRxiv (Cold Spring Harbor Laboratory)
  • ACS Nano
  • Faculty Opinions - Post-Publication Peer Review of the Biomedical Literature
  • Nature Nanotechnology

Among recent scholarly contributions are papers such as:

  • "Scalable molecular dynamics on CPU and GPU architectures with NAMD," 2020, The Journal of Chemical Physics
  • "Multiple rereads of single proteins at single-amino acid resolution using nanopores," 2021, Science
  • "The emerging landscape of single-molecule protein sequencing technologies," 2021, Nature Methods
  • "Foldamer-based ultrapermeable and highly selective artificial water channels that exclude protons," 2021, Nature Nanotechnology
  • "Unidirectional single-file transport of full-length proteins through a nanopore," 2023, Nature Biotechnology

Aksimentiev collaborates frequently with other researchers, with close coauthors including Christopher Maffeo, Himanshu Joshi, Meni Wanunu, Behzad Mehrafrooz, and Kush Coshic.

Best Publications

  • Scalable molecular dynamics on CPU and GPU architectures with NAMD.

    James C. Phillips;David J. Hardy;Julio D.C. Maia;John E. Stone

  • Slowing down DNA translocation through a nanopore in lithium chloride.

    Stefan W. Kowalczyk;David B. Wells;Aleksei Aksimentiev;Cees Dekker

  • Water−Silica Force Field for Simulating Nanodevices

    Eduardo R. Cruz-Chu;Aleksei Aksimentiev;Klaus Schulten

  • Improved Parametrization of Li+, Na+, K+, and Mg2+ Ions for All-Atom Molecular Dynamics Simulations of Nucleic Acid Systems

    Jejoong Yoo;Aleksei Aksimentiev

  • Assessing graphene nanopores for sequencing DNA.

    David B. Wells;Maxim Belkin;Jeffrey Comer;Aleksei Aksimentiev

  • New tricks for old dogs: improving the accuracy of biomolecular force fields by pair-specific corrections to non-bonded interactions

    Jejoong Yoo;Aleksei Aksimentiev

  • Modeling and simulation of ion channels.

    Christopher Maffeo;Swati Bhattacharya;Jejoong Yoo;David Wells

  • Simulation of the electric response of DNA translocation through a semiconductor nanopore?capacitor

    Maria E Gracheva;Anlin Xiong;Aleksei Aksimentiev;Klaus Schulten

  • Stretching DNA using the electric field in a synthetic nanopore.

    Jiunn B. Heng;Aleksei Aksimentiev;Chuen Ho;Patrick Marks

  • Detection of DNA sequences using an alternating electric field in a nanopore capacitor.

    Grigori Sigalov;Jeffrey Comer;Gregory Timp;Aleksei Aksimentiev

  • Deciphering ionic current signatures of DNA transport through a nanopore.

    Aleksei Aksimentiev

  • Large-Conductance Transmembrane Porin Made from DNA Origami.

    Kerstin Göpfrich;Chen Yu Li;Maria Ricci;Satya Prathyusha Bhamidimarri

  • Atoms to Phenotypes: Molecular Design Principles of Cellular Energy Metabolism

    Abhishek Singharoy;Christopher Maffeo;Karelia H. Delgado-Magnero;David J.K. Swainsbury

  • Plasmonic Nanopores for Trapping, Controlling Displacement, and Sequencing of DNA.

    Maxim Belkin;Shu Han Chao;Magnus P. Jonsson;Magnus P. Jonsson;Cees Dekker

  • Highly permeable artificial water channels that can self-assemble into two-dimensional arrays.

    Yue-xiao Shen;Wen Si;Mustafa Erbakan;Karl Decker

  • In Situ Structure and Dynamics of DNA Origami Determined Through Molecular Dynamics Simulations

    Jejoong Yoo;Aleksei Aksimentiev

  • Exploring transmembrane transport through α -hemolysin with grid-steered molecular dynamics

    David B. Wells;Volha Abramkina;Aleksei Aksimentiev

  • Insights into the Molecular Mechanism of Rotation in the Fo Sector of ATP Synthase

    Aleksei Aksimentiev;Ilya A. Balabin;Robert H. Fillingame;Klaus J Schulten

  • Electro-osmotic screening of the DNA charge in a nanopore.

    Binquan Luan;Aleksei Aksimentiev

  • Improved Parameterization of Amine–Carboxylate and Amine–Phosphate Interactions for Molecular Dynamics Simulations Using the CHARMM and AMBER Force Fields

    Jejoong Yoo;Aleksei Aksimentiev

Frequent Co-Authors

Klaus Schulten
Klaus Schulten University of Illinois at Urbana-Champaign
Ulrich F. Keyser
Ulrich F. Keyser University of Cambridge
Taekjip Ha
Taekjip Ha Johns Hopkins University
Rashid Bashir
Rashid Bashir University of Illinois at Urbana-Champaign
Cees Dekker
Cees Dekker Delft University of Technology
Christophe Chipot
Christophe Chipot University of Illinois at Urbana-Champaign
John E. Stone
John E. Stone Nvidia (United States)
Costas D. Maranas
Costas D. Maranas Pennsylvania State University
William P. King
William P. King University of Illinois at Urbana-Champaign
Philip Tinnefeld
Philip Tinnefeld Ludwig-Maximilians-Universität München

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