ArticleBiomicrofluidics2015
Measurements of DNA barcode label separations in nanochannels from time-series data.
Article in Biomicrofluidics, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 11 papers.
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
11 citing papers in PubMed.
- The Emergence of Nanofluidics for Single-Biomolecule Manipulation and Sensing.Analytical chemistry · 2025Review
- Single-molecule optical genome mapping in nanochannels: multidisciplinarity at the nanoscale.Essays in biochemistry · 2021Article
- On-Chip Stretching, Sorting, and Electro-Optical Nanopore Sensing of Ultralong Human Genomic DNA.ACS nano · 2019Article
- Extension distribution for DNA confined in a nanochannel near the Odijk regime.The Journal of chemical physics · 2019Article
- Measuring the wall depletion length of nanoconfined DNA.The Journal of chemical physics · 2018Article
- Distribution of label spacings for genome mapping in nanochannels.Biomicrofluidics · 2018Article
- Evaluation of Blob Theory for the Diffusion of DNA in Nanochannels.Macromolecules · 2018Article
- Odijk excluded volume interactions during the unfolding of DNA confined in a nanochannel.Macromolecules · 2018Article
- Electrophoretic stretching and imaging of single native chromatin fibers in nanoslits.Biomicrofluidics · 2017Article
- Dynamic simulations show repeated narrowing maximizes DNA linearization in elastomeric nanochannels.Biomicrofluidics · 2016Article
- Modeling the relaxation of internal DNA segments during genome mapping in nanochannels.Biomicrofluidics · 2016Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
4 authors.
Funding
Abstract
We analyzed time-series data for fluctuations of intramolecular segments of barcoded E. coli genomic DNA molecules confined in nanochannels with sizes near the persistence length of DNA. These dynamic data allowed us to measure the probability distribution governing the distance between labels on the DNA backbone, which is a key input into the alignment methods used for genome mapping in nanochannels. Importantly, this dynamic method does not require alignment of the barcode to the reference genome, thereby removing a source of potential systematic error in a previous study of this type. The results thus obtained support previous evidence for a left-skewed probability density for the distance between labels, albeit at a lower magnitude of skewness. We further show that the majority of large fluctuations between labels are short-lived events, which sheds further light upon the success of the linearized DNA genome mapping technique. This time-resolved data analysis will improve existing genome map alignment algorithms, and the overall idea of using dynamic data could potentially improve the accuracy of genome mapping, especially for complex heterogeneous samples such as cancer cells.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.