Review Articles

The emerging landscape of single-molecule protein sequencing technologies

Javier Antonio Alfaro, Peggy Bohländer, Mingjie Dai, Mike Filius, Cecil J. Howard, Xander F. van Kooten, Shilo Ohayon, Adam Pomorski, Sonja Schmid, Aleksei Aksimentiev, Eric V. Anslyn, Georges Bedran, Chan Cao, Mauro Chinappi, Etienne Coyaud, Cees Dekker, Gunnar Dittmar, Nicholas Drachman, Rienk Eelkema, David Goodlett et al.
Nature Methods 18 (2021)
DOI:10.1038/s41592-021-01143-1  BibTex

Chiral Systems Made from DNA

D Winogradoff, Pin‐Yi Li, H Joshi, L Quednau, C Maffeo, and Aleksei Aksimentiev
Advanced Science 8(5) 2003113 (2021)
DOI:10.1002/advs.202003113  BibTex

Molecular dynamics simulations of DNA--DNA and DNA--protein interactions

Jejoong Yoo, David Winogradoff, and Aleksei Aksimentiev
Current Opinion in Structural Biology 64 88-96 (2020)
DOI:https://doi.org/10.1016/j.sbi.2020.06.007  BibTex

Molecular Mechanisms of DNA Replication and Repair Machinery: Insights from Microscopic Simulations

Christopher Maffeo, Han-Yi Chou, and Aleksei Aksimentiev
Advanced Theory and Simulations 2 1800191 (2019)
DOI:10.1002/adts.201800191  BibTex

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

Jejoong Yoo, and Aleksei Aksimentiev
Physical Chemistry Chemical Physics 20 8432-8449 (2018)
DOI:10.1039/C7CP08185E  BibTex

Close encounters with DNA

Christopher Maffeo, J Yoo, Jeffrey Comer, D B. Wells, B Luan, and Aleksei Aksimentiev
J Phys Condens Matter 26(41) 413101 (2014)
DOI:10.1088/0953-8984/26/41/413101  PMID:25238560  BibTex

Modeling thermophoretic effects in solid-state nanopores

Maxim Belkin, Shu-Han Chao, Gino Giannetti, and Aleksei Aksimentiev
Journal of Computational Electronics 13(4) 826-838 (2014)
DOI:10.1007/s10825-014-0594-8  BibTex

Modeling and simulation of ion channels

Christopher Maffeo, Swati Bhattacharya, Jejoong Yoo, David B. Wells, and Aleksei Aksimentiev
Chem Rev 112(12) 6250-6284 (2012)
DOI:10.1021/cr3002609  PMID:23035940  BibTex

Nanopore Sequencing: Electrical Measurements of the Code of Life

Winston Timp, Utkur M. Mirsaidov, Deqiang Wang, Jeffrey Comer, Aleksei Aksimentiev, and Gregory Timp
IEEE Trans Nanotechnol 9(3) 281-294 (2010)
DOI:10.1109/TNANO.2010.2044418  PMID:21572978  BibTex

Deciphering ionic current signatures of DNA transport through a nanopore

Aleksei Aksimentiev
Nanoscale 2(4) 468-83 (2010)
DOI:10.1039/b9nr00275h  PMID:20644747  BibTex