ArticleElectrophoresis2013
Error analysis of idealized nanopore sequencing.
Article in Electrophoresis, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 19 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
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.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
19 citing papers in PubMed, 40 citations in OpenAlex.
- Article
- Detection of mRNA Transcript Variants.Genes · 2025Review
- Analytical Performance of a Novel Nanopore Sequencing for SARS-CoV-2 Genomic Surveillance.Journal of medical virology · 2024Article
- SARS-CoV-2 variants of concern and spike protein mutational dynamics in a Swedish cohort during 2021, studied by Nanopore sequencing.Virology journal · 2022Article
- Putative Novel Avian Paramyxovirus (AMPV) and Reidentification of APMV-2 and APMV-6 to the Species Level Based on Wild Bird Surveillance (United States, 2016-2018).Applied and environmental microbiology · 2022Article
- Rescuing low frequency variants within intra-host viral populations directly from Oxford Nanopore sequencing data.Nature communications · 2022Article
- Rescuing Low Frequency Variants within Intra-Host Viral Populations directly from Oxford Nanopore sequencing data.bioRxiv : the preprint server for biology · 2021Article
- Randomly primed, strand-switching, MinION-based sequencing for the detection and characterization of cultured RNA viruses.Journal of veterinary diagnostic investigation : official publication of the American Association of Veterinary Laboratory Diagnosticians, Inc · 2021Article
- Use of Oxford Nanopore MinION to generate full-length sequences of the Blastocystis small subunit (SSU) rRNA gene.Parasites & vectors · 2020Article
- Nanopore Targeted Sequencing for Rapid Gene Mutations Detection in Acute Myeloid Leukemia.Genes · 2019Article
- Rapid Detection of Genetic Engineering, Structural Variation, and Antimicrobial Resistance Markers in Bacterial Biothreat Pathogens by Nanopore Sequencing.Scientific reports · 2019Article
- Haplotype-aware diplotyping from noisy long reads.Genome biology · 2019Article
- Nanopore sequencing: An enrichment-free alternative to mitochondrial DNA sequencing.Electrophoresis · 2019Article
- Design and MinION testing of a nanopore targeted gene sequencing panel for chronic lymphocytic leukemia.Scientific reports · 2018Article
- Innovations and challenges in detecting long read overlaps: an evaluation of the state-of-the-art.Bioinformatics (Oxford, England) · 2017Review
- Rapid Production of Virus Protein Microarray Using Protein Microarray Fabrication through Gene Synthesis (PAGES).Molecular & cellular proteomics : MCP · 2017Article
- Characterization, correction and de novo assembly of an Oxford Nanopore genomic dataset from Agrobacterium tumefaciens.Scientific reports · 2016Article
- Fundamental Bounds for Sequence Reconstruction from Nanopore Sequencers.IEEE transactions on molecular, biological, and multi-scale communications · 2016Article
- Statistical inference for nanopore sequencing with a biased random walk model.Biophysical journal · 2015Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
3 authors at 1 institution in 1 country.
Funding
Abstract
This numerical study provides an error analysis of an idealized nanopore sequencing method in which ionic current measurements are used to sequence intact single-stranded DNA in the pore, while an enzyme controls DNA motion. Examples of systematic channel errors when more than one nucleotide affects the current amplitude are detailed, which if present will persist regardless of coverage. Absent such errors, random errors associated with tracking through homopolymer regions are shown to necessitate reading known sequences (Escherichia coli K-12) at least 140 times to achieve 99.99% accuracy (Q40). By exploiting the ability to reread each strand at each pore in an array, arbitrary positioning on an error rate versus throughput tradeoff curve is possible if systematic errors are absent, with throughput governed by the number of pores in the array and the enzyme turnover rate.
Indexed as
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What OpenQuestion holds
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.