Data set with ~500 antibiotics

A data set containing all antibiotics with a J0 code and some other antimicrobial agents, with their DDDs. Except for trade names and abbreviations, all properties were downloaded from the WHO, see Source.

antibiotics

Format

A data.frame with 488 observations and 17 variables:

atc

ATC code (Anatomical Therapeutic Chemical), like J01CR02

ears_net

EARS-Net code (European Antimicrobial Resistance Surveillance Network), like AMC

certe

Certe code, like amcl

umcg

UMCG code, like AMCL

abbr

Abbreviation as used by many countries, used internally by as.atc

official

Official name by the WHO, like "Amoxicillin and beta-lactamase inhibitor"

official_nl

Official name in the Netherlands, like "Amoxicilline met enzymremmer"

trivial_nl

Trivial name in Dutch, like "Amoxicilline/clavulaanzuur"

trade_name

Trade name as used by many countries (a total of 294), used internally by as.atc

oral_ddd

Defined Daily Dose (DDD), oral treatment

oral_units

Units of ddd_units

iv_ddd

Defined Daily Dose (DDD), parenteral treatment

iv_units

Units of iv_ddd

atc_group1

ATC group, like "Macrolides, lincosamides and streptogramins"

atc_group2

Subgroup of atc_group1, like "Macrolides"

useful_gramnegative

FALSE if not useful according to EUCAST, NA otherwise (see Source)

useful_grampositive

FALSE if not useful according to EUCAST, NA otherwise (see Source)

Source

- World Health Organization (WHO) Collaborating Centre for Drug Statistics Methodology: https://www.whocc.no/atc_ddd_index/

Table antibiotic coding EARSS (from WHONET 5.3): http://www.madsonline.dk/Tutorials/landskoder_antibiotika_WM.pdf

EUCAST Expert Rules, Intrinsic Resistance and Exceptional Phenotypes Tables. Version 3.1, 2016: http://www.eucast.org/fileadmin/src/media/PDFs/EUCAST_files/Expert_Rules/Expert_rules_intrinsic_exceptional_V3.1.pdf

European Commission Public Health PHARMACEUTICALS - COMMUNITY REGISTER: http://ec.europa.eu/health/documents/community-register/html/atc.htm

Read more on our website!

On our website https://msberends.gitlab.io/AMR you can find a comprehensive tutorial about how to conduct AMR analysis, the complete documentation of all functions (which reads a lot easier than here in R) and an example analysis using WHONET data.

See also

microorganisms