Mykrobe predictor statistics

info info

Citations per year

Number of citations per year for the bioinformatics software tool Mykrobe predictor
info

Tool usage distribution map

This map represents all the scientific publications referring to Mykrobe predictor per scientific context
info info

Associated diseases

This word cloud represents Mykrobe predictor usage per disease context
info

Popular tool citations

chevron_left Variant effect prediction Drug resistance chevron_right
Want to access the full stats & trends on this tool?

Protocols

Mykrobe predictor specifications

Information


Unique identifier OMICS_08316
Name Mykrobe predictor
Software type Package/Module
Interface Command line interface
Restrictions to use None
Biological technology Illumina, Oxford Nanopore
Operating system Unix/Linux, Mac OS, Windows
Computer skills Advanced
Stability Stable
Maintained Yes

Taxon


  • Bacteria
    • Staphylococcus aureus

Versioning


No version available

Documentation


Publication for Mykrobe predictor

Mykrobe predictor citations

 (7)
call_split

Genomic evolution of Staphylococcus aureus isolates colonizing the nares and progressing to bacteremia

2018
PLoS One
PMCID: 5933776
PMID: 29723202
DOI: 10.1371/journal.pone.0195860
call_split See protocol

[…] ssignments were made by searching each set of contigs for sequences of the housekeeping genes (arcC, aroE, glpF, gmk, pta, tpi, yqiL) and comparing these to a database of S. aureus types for MLST []. Mykrobe predictor was used to predict the antibiotic resistant profiles from the A5 pipeline results [].To infer the evolutionary relationships among the S. aureus isolates, sequence reads were mapped […]

library_books

DNA extraction from primary liquid blood cultures for bloodstream infection diagnosis using whole genome sequencing

2018
J Med Microbiol
PMCID: 5882078
PMID: 29458686
DOI: 10.1099/jmm.0.000664

[…] mentation in clinical settings []. However, kit-based sequencing preparation methods (such as Nextera XT), paired with the Illumina MiSeq and bioinformatics tools designed for clinical usage (such as Mykrobe Predictor) have already enabled the roll-out of WGS-based infectious disease diagnosis for organisms such as Mycobacterium tuberculosis []. For Gram-negative bacteria a WGS-resistance predicti […]

call_split

Application of whole genome sequence analysis to the study of Mycobacterium tuberculosis in Nunavut, Canada

2017
PLoS One
PMCID: 5628838
PMID: 28982116
DOI: 10.1371/journal.pone.0185656
call_split See protocol

[…] ations were manually inspected for variants occurring in AMR genes listed in the TBDream database []. Samples in which there was potential evidence of AMR-loci via this analysis were also run through Mykrobe predictor-TB [] in order to confirm associations. […]

library_books

Same Day Diagnostic and Surveillance Data for Tuberculosis via Whole Genome Sequencing of Direct Respiratory Samples

2017
J Clin Microbiol
PMCID: 5405248
PMID: 28275074
DOI: 10.1128/JCM.02483-16

[…] from reference . Singleton variants were discarded, and a deduplicated list of 68,695 SNPs was constructed. All samples (from our study and from reference ) were genotyped at these sites by using the Mykrobe predictor genotyping model (). All 27 of the MGIT samples had high coverage, but several of the direct samples had low coverage (, bottom left). For this comparison, we excluded pairs where th […]

library_books

Horses in Denmark Are a Reservoir of Diverse Clones of Methicillin Resistant and Susceptible Staphylococcus aureus

2017
Front Microbiol
PMCID: 5376617
PMID: 28421046
DOI: 10.3389/fmicb.2017.00543

[…] ); reference for vWbp Seq1 was obtained from S. aureus DL584 (HM228920); and reference for lukP and lukQ were obtained from S. aureus 3711 (LT671578). Genotypic resistance profiles were obtained with Mykrobe Predictor v0.4.3 build 0-gd6c8714 (Bradley et al., ). […]

library_books

Some Synonymous and Nonsynonymous gyrA Mutations in Mycobacterium tuberculosis Lead to Systematic False Positive Fluoroquinolone Resistance Results with the Hain GenoType MTBDRsl Assays

2017
Antimicrob Agents Chemother
PMCID: 5365657
PMID: 28137812
DOI: 10.1128/AAC.02169-16

[…] ter uptake in clinical settings (, , ). Importantly, this also applies to software tools designed to automate the analysis of whole-genome sequencing data. In fact, three of the current tools (KvarQ, Mykrobe Predictor TB, and TB Profiler) misclassified strain BTB-08-045 with gyrA T80A+A90G as resistant to at least one fluoroquinolone because the respective mutation catalogues of these tools list A […]


Want to access the full list of citations?

Mykrobe predictor reviews

star_border star_border star_border star_border star_border
star star star star star

Be the first to review Mykrobe predictor