Just how versatile are domains?

Supplementary material

[ DVI ]

Supplementary Figures: Number of occurences vs. number of neighbors for different domains (a separate plot for each domain).
Supplementary Table 1: Full results (tab separated table) columns: domain, dvi, dvi error, domain description
Comparison of different measures and domain age (tab separated table); NCO - number of cooccurences; NN- number of neighbors; NTRP - number of triplets ; N - number of occurences.
Comparison of DVI derived from different measures. The DVI has been calculated based on regression of [measure] over number of occurences, where [measure] is one of: NN (number of immediate neighbors), NCO (number of cooccurences) or NTRP (number of triplets). Columns:

Column name Description

G_n Number of genomes

lreg DVI based on NN

lerr ,, ,, ,, -- error

tlreg DVI based on NTRP

tlerr ,, ,, ,, -- error

clreg DVI based on NCO

clerr ,, ,, ,, -- error

Calculated correlation coefficients (all coefficients significant with p < 1e-15):

lreg clreg tlreg

lreg 1.0 0.7 0.9

clreg 1.0 0.6

tlreg 1.0
Results for PFAM Clans
- Average DVI's for domains from a given CLAN. Columns: clan, total number of domains in clan, total number of domains with DVI in clan, average DVI for clan
- De novo calculation of DVI for CLANS. Columns: clan, number of genomes in which a clan is found, lreg (dvi), lerr (error of dvi)
- A plot showing the correlation between the average DVI for domains of a clan and the de novo calculated DVI for CLANS
Archive containing the domain arrangements from 10,746 species in the XDOM format. File size: 46M; format: tar gzipped archive; contains 10,746 files.