Since the first two complete bacterial genome sequences were published in 1995, the
science of bacteria has dramatically changed. Using third-generation DNA sequencing, it is …

… and Nielsen and Lund. Of these, the NN-align algorithm 47 is the only method that explicitly
incorporates PFR and peptide length in the training, and in the work by Nielsen et al., it was …

AB‐cell epitope is the three‐dimensional structure within an antigen that can be bound to
the variable region of an antibody. The prediction of B‐cell epitopes is highly desirable for …

Objectives Identification of antimicrobial resistance genes is important for understanding the
underlying mechanisms and the epidemiology of antimicrobial resistance. As the costs of …

Objectives WGS-based antimicrobial susceptibility testing (AST) is as reliable as phenotypic
AST for several antimicrobial/bacterial species combinations. However, routine use of WGS-…

In the work presented here, we designed and developed two easy-to-use Web tools for in
silico detection and characterization of whole-genome sequence (WGS) and whole-plasmid …

Accurate strain identification is essential for anyone working with bacteria. For many species,
multilocus sequence typing (MLST) is considered the “gold standard” of typing, but it is …

Most current approaches for analyzing metagenomic data rely on comparisons to reference
genomes, but the microbial diversity of many environments extends far beyond what is …

In this paper we describe an improved neural network method to predict T‐cell class I epitopes.
A novel input representation has been developed consisting of a combination of sparse …

… Ole Lund … Since this dataset was unavailable in an electronic form it was recreated by
Lund et al. [17]. The epitope annotations were taken from Pellequer et al. … Ole Lund …