W15: Bacterial Genomics – Day 1

The workshop will mainly focus on teaching the fundamentals of bacterial genomics and basic bioinformatics analysis. As a sample data Vibrio cholerae genome will be used as the practice dataset, and workshop participants will try to reproduce the expected results. The workshop will start with detailed instructions on how to quality control the raw sequence data and the assemble of a genome. Next, basic statistics will be explained to learn how to check the quality of assembledgenome (e.g., N50, # of contigs, # of core genes). On the genome analysis, average nucleotide identity (ANI) will be performed to identify the genome into known species followed by a prediction of open reading frames (ORFs), protein annotation, and comparing the results with other genomes.