Pan-genome vs. core-genome
Pan-genome and core-genome can be obtained from multiple genomes in a data set. Both core- and pan-genomes are collections of orthologs or orthologous groups, and
Tag: CDS
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Pan-genome analysis
A pan-genome is a union of the protein-coding genes (=CDS) in a given set of genomes. Generally, building a pan-genome starts from a set of annotated
Pan-genome orthologous group (POG)
Pan-genome orthologous group (POG) refers to “a group of orthologous genes (orthologs)” that are identified from multiple genomes. The below figure illustrates how POGs are
Gene presence/absence analysis
Genes within a genome are never fixed, even for a very short period of time. That’s why we encounter new bacterial variants with novel antibiotic
Ortholog and its detection
Definition of Homology, Orthology and Paralogy Homology is a term used when two genes share a common ancestor. The two genes are considered “homologous” or “not homologous” depending
Statistical comparison of genomic properties
In this analysis, the following genomic properties are compared to elucidate possible correlation between them. Genome size in Mbp (million base pairs) DNA GC content in
Gene frequency plot in pan-genome
All potential orthologous protein-coding  genes (=CDSs) are clustered into non-redundant gene sets after pan-genome calculation to generate “Pan-genome Orthologous Groups (POGs)”. Obviously, a core part
