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Searching for shared sequence between Mycobacterium tuberculosis and Homo sapiens

Authors: Hall, Michael B.;

Searching for shared sequence between Mycobacterium tuberculosis and Homo sapiens

Abstract

{"references": ["Nilgiriwala K, Rabodoarivelo M-S, Hall MB, Patel G, Mandal A, Mishra S, et al. Genomic sequencing from sputum for tuberculosis disease diagnosis, lineage determination, and drug susceptibility prediction. J Clin Microbiol. 2023;61: e0157822. doi:10.1128/jcm.01578-22", "Rhie A, Nurk S, Cechova M, Hoyt SJ, Taylor DJ, Altemose N, et al. The complete sequence of a human Y chromosome. bioRxiv. 2022. doi:10.1101/2022.12.01.518724", "Cole ST, Brosch R, Parkhill J, Garnier T, Churcher C, Harris D, et al. Deciphering the biology of Mycobacterium tuberculosis from the complete genome sequence. Nature. 1998;393: 537\u2013544. doi:10.1038/31159", "Wick R. Badread: simulation of error-prone long reads. J Open Source Softw. 2019;4: 1316. doi:10.21105/joss.01316", "Li H. Minimap2: pairwise alignment for nucleotide sequences. Bioinformatics. 2018;34: 3094\u20133100. doi:10.1093/bioinformatics/bty191", "Jain C, Rhie A, Hansen NF, Koren S, Phillippy AM. Long-read mapping to repetitive reference sequences using Winnowmap2. Nat Methods. 2022;19: 705\u2013710. doi:10.1038/s41592-022-01457-8", "Huang W, Li L, Myers JR, Marth GT. ART: a next-generation sequencing read simulator. Bioinformatics. 2012;28: 593\u2013594. doi:10.1093/bioinformatics/btr708"]}

In this short report, I explore whether Mycobacterium tuberculosis and Homo sapiens share genomic sequence through shared k-mer analysis and simulated read alignment. You can read the HTML version on my website.

Related Organizations
Keywords

tuberculosis, shared sequence, k-mer, alignment, bioinformatics, human

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selected citations
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This is an alternative to the "Influence" indicator, which also reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
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popularity
This indicator reflects the "current" impact/attention (the "hype") of an article in the research community at large, based on the underlying citation network.
BIP!Popularity provided by BIP!
influence
This indicator reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
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impulse
This indicator reflects the initial momentum of an article directly after its publication, based on the underlying citation network.
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