The DOI matches its Crossref record; 3 of the 3 references it cites were found in a registry or an index.
Improved data analysis for the MinION nanopore sequencer
Open accessAbstract
Speed, single-base sensitivity and long read lengths make nanopores a promising technology for high-throughput sequencing. We evaluated and optimized the performance of the MinION nanopore sequencer using M13 genomic DNA and used expectation maximization to obtain robust maximum-likelihood estimates for insertion, deletion and substitution error rates (4.9%, 7.8% and 5.1%, respectively). Over 99% of high-quality 2D MinION reads mapped to the reference at a mean identity of 85%. We present a single-nucleotide-variant detection tool that uses maximum-likelihood parameter estimates and marginalization over many possible read alignments to achieve precision and recall of up to 99%. By pairing our high-confidence alignment strategy with long MinION reads, we resolved the copy number for a cancer-testis gene family (CT47) within an unresolved region of human chromosome Xq24.
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Basic local alignment search tool
Altschul, S. F., Gish, W., Miller, W., Myers, E. W., & Lipman, D. J. (1990) · Journal of Molecular Biology · doi:10.1006/jmbi.1990.9999 · Cited by 98,669
BEDTools: a flexible suite of utilities for comparing genomic features
Quinlan, A. R., & Hall, I. M. (2010) · Bioinformatics · doi:10.1093/bioinformatics/btq033 · Cited by 27,437
Detection and mapping of 5-methylcytosine and 5-hydroxymethylcytosine with nanopore MspA
Laszlo, A. H., Derrington, I. M., Brinkerhoff, H., Langford, K. W., Nova, I. C., Samson, J. M., Bartlett, J. J., Pavlenok, M., & Gundlach, J. H. (2013) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.1310240110 · Cited by 321
Cited by
Coming of age: ten years of next-generation sequencing technologies
Goodwin, S., McPherson, J. D., & McCombie, W. R. (2016) · Nature Reviews Genetics · doi:10.1038/nrg.2016.49 · Cited by 4,352
Nanopore sequencing and assembly of a human genome with ultra-long reads
Jain, M., Koren, S., Miga, K. H., Quick, J., Rand, A. C., Sasani, T. A., Tyson, J. R., Beggs, A. D., Dilthey, A. T., Fiddes, I. T., et al. (2018) · Nature Biotechnology · doi:10.1038/nbt.4060 · Cited by 1,892
Self-citationThe Oxford Nanopore MinION: delivery of nanopore sequencing to the genomics community
Jain, M., Olsen, H. E., Paten, B., & Akeson, M. (2016) · Genome Biology · doi:10.1186/s13059-016-1103-0 · Cited by 1,588
Self-citationCentrifuge: rapid and sensitive classification of metagenomic sequences
Kim, D., Song, L., Breitwieser, F. P., & Salzberg, S. L. (2016) · Genome Research · doi:10.1101/gr.210641.116 · Cited by 1,438
Three decades of nanopore sequencing
Deamer, D., Akeson, M., & Branton, D. (2016) · Nature Biotechnology · doi:10.1038/nbt.3423 · Cited by 1,292
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Metadata
- Authors
- Jain, M., Fiddes, I. T., Miga, K. H., Olsen, H. E., Paten, B., & Akeson, M.
- Venue
- Nature Methods
- Published
- 2015-02-16
- Volume
- 12
- Issue
- 4
- Pages
- 351-356
- ISSN
- 1548-7091 (ISSN-L)
- 1548-7105
- OpenAlex
- W2007772656
- Cited by
- 639
- References
- 3
- FWCI
- 37.57
- Type
- journal article
- Language
- en
- Open access
- green
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