Eike J. Steinig

This study benchmarks variant callers on bacterial nanopore data, finding deep learning tools outperform traditional methods and Illumina in accuracy and efficiency.

PathoGD designs primers and gRNAs for CRISPR-Cas12a-based pathogen detection with high specificity, validated for Neisseria gonorrhoeae and Streptococcus pyogenes.

This study introduces Sketchy, a genomic neighbor typing tool for bacterial outbreak surveillance, showing improved lineage prediction but limitations in clade-specific genotype resolution.

This paper uses nanopore sequencing and Random Forest models to estimate transmission dynamics of MRSA outbreaks, showing sustained transmission with Re > 1.

This study develops ARDaP, a tool for comprehensive antimicrobial resistance detection in Burkholderia pseudomallei, outperforming existing tools by identifying SNPs, indels, CNVs, and gene loss determinants, including previously undescribed ones.

This study traces the origin and global spread of a multidrug-resistant MRSA lineage from the Indian subcontinent, showing its emergence through plasmid acquisition and intercontinental transmission.