Predicting antibiotic resistance from genomic data
Yang Y., Niehaus KE., Clifton DA.
Cutting-edge machine learning tools have shown significant promise for infectious disease control using the bacterial genome. In this chapter, an overview of key problems of clinical microbiology surrounding infectious disease management, antibiotic resistance, and clinical susceptibility test to antimicrobial drugs, will be provided, followed by an introduction of genomic data used in genotypic prediction of the phenotype for antimicrobial resistance. This chapter will then provide machine learning models for bacterial resistance prediction using genome, as well as promising tools for exploring the bacterial genomic pattern.