| date | title | categories | description | type | related_post | comments | |
|---|---|---|---|---|---|---|---|
2019-06-04 |
Baker 2018 |
|
AMR genes detection and genomic characterization of Shigella flexneri 2a and S. sonnei |
Document |
true |
- AMR genes detection in Shigella
| Key | Value |
|---|---|
| category | assembly-based |
| platform | illumina |
| open source | true |
| reproducible | true |
| documented | false |
ResFinder database
- Step 1
Genomic DNA was sequenced using the Illumina platform
- Step 2
Sanger Institute assembly and improvement pipeline (https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5320598/) was used for de novo genome assembly
- Step 3
Antimicrobial resistance genes were searched through the database
The paper(s) documenting this protocol: Baker KS et al. Genomic epidemiology of Shigella in the United Kingdom shows transmission of pathogen sublineages and determinants of antimicrobial resistance. Scientific Reports 2019