High-speed detection of DNA translocation in nanopipettes

Fraccari, Raquel L.; Ciccarella, Pietro; Bahrami, Azadeh; Carminati, Marco; Ferrari, Giorgio; Albrecht, Tim

doi:10.1039/c5nr08634e

Cited by 28 publications

(41 citation statements)

References 34 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…31 The speed of the DNA during the process is determined by electrophoresis and hydrodynamic friction, in some cases potentially also involving surface adsorption effects. 32,33,34 For sensing purposes not just the average properties of the translocation signal, such as the mean translocation time ‹t› or the mean current modulation I, are relevant, but equally the corresponding distributions. It is illustrative to discuss these aspects in a little more detail, inasmuch they inform experimental design and sensor operation.…”

Section: Fundamental Aspects Of the Dna Translocation Processmentioning

confidence: 99%

Progress in single-biomolecule analysis with solid-state nanopores

Albrecht

2017

Current Opinion in Electrochemistry

View full text Add to dashboard Cite

Solid-state nanopores and nanopipettes are a new class of stochastic, single-molecule sensors that have now reached a certain degree of maturity. While DNA sequencing has been a major driving force in the field of nanopore sensing since the early 1990s, a feat that has now been achieved with modified biological pores, new potential applications emerge, in particular for solid-state devices. These capitalize on some of the advantages of solid-state pores over their biological counterparts as well as recent technological advances and progress in our fundamental understanding of the translocation process. Here, we will discuss and highlight some of these developments with particular focus on single-molecule analysis of and structures based on double-stranded DNA.

show abstract

Section: Fundamental Aspects Of the Dna Translocation Processmentioning

confidence: 99%

Progress in single-biomolecule analysis with solid-state nanopores

Albrecht

2017

Current Opinion in Electrochemistry

View full text Add to dashboard Cite

show abstract

“…Silicon based nanomaterials are suitable for device applications, since they feature excellent bio-compatibility and bio-degradability. 21 These properties make silica a key material in wet technologies concerned with water desalination, 6 biosensing, 21 detection of macromolecules [22][23][24] or the separation of chemicals. 5 Experimental and molecular simulations studies have shown that silica nanopores influence the structure and dynamics of confined water.…”

Section: Introductionmentioning

confidence: 99%

Taming the thermodiffusion of alkali halide solutions in silica nanopores

2020

Self Cite

View full text Add to dashboard Cite

show abstract

“…The probability distribution of e was found to be skewed and well approximated heuristically by a log-normal distribution. 16 Sub-events are more challenging to identify and analyse, because they typically contain far fewer data points than the events themselves. We therefore took a somewhat different approach in searching for and analysing those sub-events.…”

Section: Methodsmentioning

confidence: 99%

Electric Single-Molecule Hybridization Detector for Short DNA Fragments

et al. 2018

View full text Add to dashboard Cite

In combining DNA nanotechnology and high-bandwidth single-molecule detection in nanopipettes, we demonstrate an all-electric, label-free hybridisation sensor for short DNA sequences (< 100 nt).Such short fragments are known to occur as circulating cell-free DNA in various bodily fluids, such as blood plasma and saliva, and have been identified as disease markers for cancer and infectious diseases. To this end, we use as a model system a 88-mer target from the RV1910c gene in Mycobacterium tuberculosis that is associated with antibiotic (isoniazid) resistance in TB. Upon binding to short probes attached to long carrier DNA, we show that resistive pulse sensing in nanopipettes is capable of identifying rather subtle structural differences, such as the hybridisation state of the probes, in a statistically robust manner. With significant potential towards multiplexing and highthroughput analysis, our study points towards a new, single-molecule DNA assay technology that is fast, easy to use and compatible with point of care environments. Nanopore devices are a new class of stochastic single-molecule sensors. As nanoscale analogues of the well-known Coulter counter, which is routinely used for cell counting in hospital environments, they have been developed towards fast and label-free DNA sequencing. 1 This feat has now largely been achieved with (modified) biological pores, such as -hemolysin. 2 However, resistive pulse sensing with solid-state nanopores and nanopipettes offers a range of other potential applications.These nanodevices are relatively easy to fabricate (especially nanopipettes 3,4 ) and there is usually considerable flexibility in their design, with regards to the pore dimensions (diameter, channel length,

show abstract

High-speed detection of DNA translocation in nanopipettes

Cited by 28 publications

References 34 publications

Progress in single-biomolecule analysis with solid-state nanopores

Progress in single-biomolecule analysis with solid-state nanopores

Taming the thermodiffusion of alkali halide solutions in silica nanopores

Electric Single-Molecule Hybridization Detector for Short DNA Fragments

Contact Info

Product

Resources

About