Multi-resolution simulation of DNA transport through large synthetic nanostructures
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A new combination of coarse-grained modeling and finite element calculations enable rapid and accurate characterization of DNA transport through nanostructures of diverse geometries.
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Pan et al. used TIRF to group fluorophores into bright ("on") lengths along a DNA origami rod, separated by dark ("off") regions, creating geometric barcodes using only one color of emitter.
“Pan et al. utilized this diffraction-limited imaging technique to devise a method to group fluorophores into bright (“on”) lengths along a DNA origami rod.121 Such bright spots were separated by dark (“off”) regions to create geometric barcodes using only one color of emitter (Figure 9C).”
From Emerging Approaches to DNA Data Storage: Challenges and Prospects (2022) · cites this paper as [121]
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- Authors
- Choudhary, A., Maffeo, C., & Aksimentiev, A.
- Affiliations
- University of Illinois Urbana-Champaign (US)
- Corresponding author
- Aksimentiev, Aleksei
- Venue
- Physical Chemistry Chemical Physics
- Publisher
- Royal Society of Chemistry (RSC)
- Published
- 2022
- Volume
- 24
- Issue
- 5
- Pages
- 2706-2716
- ISSN
- 1463-9076 (ISSN-L)
- 1463-9084
- PMC
- PMC8855663
- OpenAlex
- W4205741836
- Cited by
- 22
- References
- 68
- Citations by year
- 2026: 5 · 2025: 4 · 2024: 5 · 2023: 3 · 2022: 5
- FWCI
- 0.38
- Type
- journal article
- Language
- en
- Open access
- green
- www.ncbi.nlm.nih.gov
- Locations
- Physical Chemistry Chemical Physics (publishedVersion)
- PubMed (publishedVersion)
- PubMed Central (acceptedVersion)
- Funders
- National Human Genome Research Institute (R21-HG011741)
- National Institute of General Medical Sciences (P41-GM104601)
- National Science Foundation (DMR-1827346)
- Topics
- Physical Sciences › Engineering › Biomedical Engineering › Nanopore and Nanochannel Transport Studies
- Physical Sciences › Chemistry › Physical and Theoretical Chemistry › Electrostatics and Colloid Interactions
- Physical Sciences › Engineering › Electrical and Electronic Engineering › Molecular Junctions and Nanostructures
- Keywords
- nanopore sensing, DNA translocation, multi-resolution modeling, synthetic nanopores, solid-state nanopores, DNA origami, nanocapillaries, ionic current blockade, electric field-driven transport
- MeSH terms
- Biological Transport, DNA, Electricity, Molecular Dynamics Simulation, Nanopores
About these checks
Registry, retraction, Cites and statistics results are computed, not judged, with one exception: a printed reference that no index lists is read once by a model before it counts as a citation error. Claims are extracted by a model and kept only when their quote appears verbatim in the text; each cited source is then checked, with a model’s help, for whether it says what the claim relies on. Those verdicts can be wrong — read the claim’s quote and the cited source before relying on one.
Statistics and arithmetic are recomputed, not judged.
Confidence bands are shown only for fields calibrated on our annotated test set. None is calibrated yet, so no band is shown.
What counts as a claim ›How we measure confidence ›How we check this ›
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