• #003366
    Mrdna: Multi-resolution DNA modeling package blends speed and accuracy for structure determination
  • #0000cc
    Nanopore recognition of the twenty amino acids
  • #009999
    Predicting energy production of entire photosynthetic organelle from atomic simulations
  • #ff9933
    Artificial water channels enable rapid and selective water transport
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    Guiding the capture of DNA molecules and proteins
  • #333366
    Outperforming nature: synthetic enzyme built from DNA flips lipids of biological membranes at record rates
  • #ff9900
    Under Pressure: repellant nanopores
  • #000099
    Simulations capture diffusive substeps of a protein moving along ssDNA
  • #999999
    MD simulations link DNA flexibility to base modifications
  • #3366cc
    Plasmonic Nanopores for Trapping, Controlling Displacement, and Sequencing of DNA

Select recent publications

MrDNA: a multi-resolution model for predicting the structure and dynamics of DNA systems

Christopher Maffeo, and Aleksei Aksimentiev
Nucleic Acids Research (2020)
DOI:10.1093/nar/gkaa200  BibTex

Protein unfolding by SDS: the microscopic mechanisms and the properties of the SDS-protein assembly

David Winogradoff, Shalini John, and Aleksei Aksimentiev
Nanoscale 12(9) 5422-5434 (2020)
DOI:10.1039/c9nr09135a  BibTex

Polyhydrazide-based organic nanotubes as extremely efficient and highly selective artificial iodide channels

Arundhati Roy, Himanshu Joshi, Ruijuan Ye, Jie Shen, Feng Chen, Aleksei Aksimentiev, and Huaqiang Zeng
Angewandte Chemie International Edition 12(59) 4806-4813 (2020)
DOI: https://doi.org/10.1002/anie.201916287  BibTex

Rosette Nanotube Porins as Ion Selective Transporters and Single-Molecule Sensors

Prabhat Tripathi, Liang Shuai, Himanshu Joshi, Hirohito Yamazaki, William H. Fowle, Aleksei Aksimentiev, Hicham Fenniri, and Meni Wanunu
Journal of the American Chemical Society 142(4) 1680-1685 (2020)
DOI:https://doi.org/10.1021/jacs.9b10993  BibTex

Artificial Water Channels Enable Fast and Selective Water Permeation Through Water-wire Networks

Woochul Song, Himanshu Joshi, Ratul Chowdhury, Joseph S. Najem, Yue-xiao Shen, Chao Lang, Codey B. Henderson, Yu-Ming Tu, Megan Farell, Megan E. Pitz, Costas D. Maranas, Paul S. Cremer, Robert J. Hickey, Stephen A. Sarles, Jun-li Hou, Aleksei Aksimentiev, and Manish Kumar
Nature Nanotechnology. 15, 73-79 (2020)
DOI:https://doi.org/10.1038/s41565-019-0586-8  BibTex