2019
DOI: 10.1038/s41587-019-0096-0
|View full text |Cite
|
Sign up to set email alerts
|

Increasing the accuracy of nanopore DNA sequencing using a time-varying cross membrane voltage

Abstract: Nanopore DNA sequencing is limited by low base calling accuracy. Improved base-calling accuracy has so far relied on specialized base-calling algorithms, different nanopores and motor enzymes, or biochemical methods to re-read DNA molecules. Two primary error modes hamper sequencing accuracy: enzyme mis-steps and sequences with indistinguishable signals. We vary the driving voltage across an MspA nanopore between 100 to 200 mV with a frequency of 200 Hz, changing how the DNA strand moves through the nanopore. … Show more

Help me understand this report

Search citation statements

Order By: Relevance

Paper Sections

Select...
2
1
1
1

Citation Types

5
95
0

Year Published

2019
2019
2024
2024

Publication Types

Select...
8
1
1

Relationship

0
10

Authors

Journals

citations
Cited by 100 publications
(108 citation statements)
references
References 36 publications
5
95
0
Order By: Relevance
“…Many modifications, including 5mC, do not influence the SMRT polymerase' dynamics sufficiently to be detected at a useful sensitivity (5mC requires 250× coverage). In this case, software improvements are unlikely to yield significant gains, and improvements in sequencing chemistries are probably required [168]. Nanopore sequencing appears more amenable to the detection of a wide array of base modifications (to date: 5mCG, BrdU, 6mA), but the lack of ground truth data to train models and the combinatorial complexity of introducing multiple alternative bases are hindering progress towards a goal of seamless basecalling from an extended alphabet of canonical and non-canonical bases.…”
Section: Discussionmentioning
confidence: 99%
“…Many modifications, including 5mC, do not influence the SMRT polymerase' dynamics sufficiently to be detected at a useful sensitivity (5mC requires 250× coverage). In this case, software improvements are unlikely to yield significant gains, and improvements in sequencing chemistries are probably required [168]. Nanopore sequencing appears more amenable to the detection of a wide array of base modifications (to date: 5mCG, BrdU, 6mA), but the lack of ground truth data to train models and the combinatorial complexity of introducing multiple alternative bases are hindering progress towards a goal of seamless basecalling from an extended alphabet of canonical and non-canonical bases.…”
Section: Discussionmentioning
confidence: 99%
“…The possibility to do so rapidly and at a relatively modest cost is of added interest, and may be of interest for field studies since the MinION sequencer is portable and able to perform real-time sequencing and base-calling (46). At present, the technology is still hindered by the limited level of sequence accuracy but this is rapidly changing as sequencing chemistry and base-calling algorithms are evolving (47,48). The variety of flow cells and equipment available enables to better tailor the sequencing tools according to the number of samples.…”
Section: Discussionmentioning
confidence: 99%
“…During the process, the resistive current pulse, the frequency of pore block events, and the time the analyte takes to pass through the pore detection zone are measured. These parameters allow a molecule to be identified according to its distinctive register that is based on its capacity to block the pore [106][107][108].…”
Section: Biosensors Based On Actinoporins Nanoporesmentioning
confidence: 99%