Download Organism sorting rules

Organism sorting rules
The genomic context view displays a limited portion of a subset of genomes, focussed on a reference
gene belonging to a reference organism. The top row shows the genomic context in this reference
organism, around the centrally located reference gene. Genes (represented as arrow-shaped boxes)
are colored according to the cluster they belong to.
Each row below the reference genome shows a portion of another organism's genome, centered on
the gene belonging to the same cluster as the reference gene (these genes are considered as being
orthologs). The order in which the organisms are drawn, from top to bottom, is determined by a
« proximity score» accounting for the number of conserved orthologs (i.e. genes belonging to the
same cluster) in the neighbourhood of the ortholog of the reference gene. This score is computed as
follows (see the figure below): each gene in the neighbourhood of the ortholog of the reference gene
is awarded 2 points if it is an ortholog of (i.e. belongs to the same cluster as) one of the genes in the
neighbourhood of the reference gene, and an additional point if it is at the same distance from the
reference gene in the two organisms. Thus, the proximity score of an organism is the sum of the
points of every gene in the neighbourhood of the ortholog of the reference gene.
Figure : Sorting example