The DOI matches its Crossref record; 4 of the 4 references it cites were found in a registry or an index.
Multiple Alignment of DNA Sequences with MAFFT
Abstract
Multiple alignment of DNA sequences is an important step in various molecular biological analyses. As a large amount of sequence data is becoming available through genome and other large-scale sequencing projects, scalability, as well as accuracy, is currently required for a multiple sequence alignment (MSA) program. In this chapter, we outline the algorithms of an MSA program MAFFT and provide practical advice, focusing on several typical situations a biologist sometimes faces. For genome alignment, which is beyond the scope of MAFFT, we introduce two tools: TBA and MAUVE.
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Citations
Cites
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Cited by
MAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability
Katoh, K., & Standley, D. M. (2013) · Molecular Biology and Evolution · doi:10.1093/molbev/mst010 · Cited by 46,209
Self-citationA new bioinformatics analysis tools framework at EMBL-EBI
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A molecular phylogeny of living primates
Perelman, P., Johnson, W. E., Roos, C., Seuánez, H. N., Horvath, J. E., Moreira, M. A. M., Kessing, B., Pontius, J., Roelke, M., Rumpler, Y., et al. (2011) · PLoS Genetics · doi:10.1371/journal.pgen.1001342 · Cited by 1,414
“DNA Sequence Analyses Multiple sequence files for each gene segment amplified were aligned by MAFFT version 6 [69,70], imported into Se-Al ver Figure 2.”
MethodPhylotranscriptomic analysis of the origin and early diversification of land plants
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Evolutionary origins of the SARS-CoV-2 sarbecovirus lineage responsible for the COVID-19 pandemic
Boni, M. F., Lemey, P., Jiang, X., Lam, T. T.-Y., Perry, B. W., Castoe, T. A., Rambaut, A., & Robertson, D. L. (2020) · Nature Microbiology · doi:10.1038/s41564-020-0771-4 · Cited by 1,014
“Sequences were aligned by MAFTT (Katoh et al., 2009), with a final alignment length of 30927, and used in the analyses below.”
MethodThe evolutionary history of dogs in the Americas
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Extreme Genomic CpG Deficiency in SARS-CoV-2 and Evasion of Host Antiviral Defense
Xia, X. (2020) · Molecular Biology and Evolution · doi:10.1093/molbev/msaa094 · Cited by 160
Whole-Genome Duplication and the Functional Diversification of Teleost Fish Hemoglobins
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DNA end sensing and cleavage by the Shedu anti-phage defense system
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Coevolution between Stop Codon Usage and Release Factors in Bacterial Species
Wei, Y., Wang, J., & Xia, X. (2016) · Molecular Biology and Evolution · doi:10.1093/molbev/msw107 · Cited by 46
Insights into the CRISPR/Cas system of Gardnerella vaginalis
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Rhodopsin gene copies in Japanese eel originated in a teleost-specific genome duplication
Nakamura, Y., Yasuike, M., Mekuchi, M., Iwasaki, Y., Ojima, N., Fujiwara, A., Chow, S., & Saitoh, K. (2017) · Zoological Letters · doi:10.1186/s40851-017-0079-2 · Cited by 21
Metadata
- Authors
- Katoh, K., Asimenos, G., & Toh, H.
- Venue
- Methods in Molecular Biology
- Publisher
- Humana Press
- Published
- 2009
- Volume
- 537
- Pages
- 39-64
- ISSN
- 1064-3745 (ISSN-L)
- 1940-6029
- OpenAlex
- W118013854
- Cited by
- 1,438
- References
- 4
- FWCI
- 91.74
- Type
- book chapter
- Language
- en
- Open access
- closed
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