ArticleGenome medicine2016
SpoTyping: fast and accurate in silico Mycobacterium spoligotyping from sequence reads.
Article in Genome medicine, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 74 papers.
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Who cites it
74 citing papers in PubMed.
- Uncovering the genomic landscape of Mycobacterium bovis in Wales.Scientific reports · 2026Article
- First report of whole genome sequence of a Mycobacterium bovis (3/86Rv) strain isolated from a cow in India.Brazilian journal of microbiology : [publication of the Brazilian Society for Microbiology] · 2025Article
- First report of whole genome sequence of a Mycobacterium bovis (3/86Rv) strain isolated from a cow in India.Brazilian journal of microbiology : [publication of the Brazilian Society for Microbiology] · 2025Article
- M. caprae in northern Italy: a comprehensive analysis through whole-genome sequencing on the genetic variability in bovine herds.Veterinary research · 2025Article
- First insights into the genetic composition ofJournal of clinical tuberculosis and other mycobacterial diseases · 2025Article
- Whole-Genome Sequence-Based Diversity ofPathogens (Basel, Switzerland) · 2025Article
- Whole-genome sequencing analysis to identify antimicrobial resistance regions and virulence factors in Mycobacterium tuberculosis isolates from the Amhara Region, Ethiopia.Scientific reports · 2025Article
- Molecular typing of Mycobacterium tuberculosis: a review of current methods, databases, softwares, and analytical tools.FEMS microbiology reviews · 2025Review
- Enhanced analysis of the genomic diversity ofFrontiers in microbiology · 2025Article
- The microevolutionary trajectory of endemic multidrug-resistant tuberculosis strains in Portugal toward increased drug resistance levels and its clinical significance.Frontiers in microbiology · 2025Article
- GenoMycAnalyzer: a web-based tool for species and drug resistance prediction for Mycobacterium genomes.BMC genomics · 2024Article
- Whole-genome sequencing-based genetic diversity, transmission dynamics, and drug-resistant mutations inFrontiers in public health · 2024Article
- Genomic comparison betweenFrontiers in veterinary science · 2024Article
- Genomic Characterization of Drug-ResistantAntibiotics (Basel, Switzerland) · 2023Article
- Insight into pathogenomics and phylogeography of hypervirulent and highly-lethal Mycobacterium tuberculosis strain cluster.BMC infectious diseases · 2023Article
- The future of CRISPR in Mycobacterium tuberculosis infection.Journal of biomedical science · 2023Review
- Features ofMicroorganisms · 2023Article
- Genomic Diversity of the Rarely Observed Genotype of theMicroorganisms · 2023Article
- New insights on tuberculosis transmission dynamics and drug susceptibility profiles among the prison population in Southern Brazil based on whole-genome sequencing.Revista da Sociedade Brasileira de Medicina Tropical · 2023Article
- Investigating the Diversity of Tuberculosis Spoligotypes with Dimensionality Reduction and Graph Theory.Genes · 2022Article
14 more citing papers are in PubMed but not listed here.
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Authors and funding
3 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
SpoTyping is a fast and accurate program for in silico spoligotyping of Mycobacterium tuberculosis isolates from next-generation sequencing reads. This novel method achieves high accuracy for reads of both uniform and varying lengths, and is about 20 to 40 times faster than SpolPred. SpoTyping also integrates the function of producing a report summarizing associated epidemiological data from a global database of all isolates having the same spoligotype. SpoTyping is freely available at: https://github.com/xiaeryu/SpoTyping-v2.0 .
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