OMEGAbase

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Query pre-computed values of selective pressure analyses acting on genes. OMEGAbase contains >105,000 entries corresponding to orthologuous genes from 10 species. All positively selected sites are entered in OMEGAbase. Positively selected sites were assessed for their functional impact. OMEGAbase

Statistics:

Total entries in OMEGAbase: 105,730 genes
Number of orthologuous genes: 10,573
Species analyzed: Human, Chimpanzee, Orang-utang, Macaque, Marmoset, Mouse, Rat, Dog, Cow, Horse

100,116

P

S

G

5614

(branch_site model; ω2>1, LRT test pval≤0.05

PSG

3114

PSG

≥2 lineages

2500

Pairwise

8300

(Bayes Empirical Bayes analysis: posterior probabilities (≥0.95) of having ω greater than 1)

• Average number of selected sites per PSG: 1.47

Query OMEGAbase:

Branch-site model values: Query per species or using keyword

selective pressure type, ω2_value, proportion of sites under selection, positive selected sites

Select species:
Paste in a query [gene_symbol, Ensembl_Id]

Query example:	Browser response :
→ NEUROD2	Displays data for NEUROD2 for all species
→ BRCA	Displays data for BRCA1 and BRC12 for all species
→ ENSCAFG00000006603	Displays data using Ensembl_Id
→ KRT	Displays data for all keratin genes (KRT) or related genes for all species
Select • species: • chromosome: chr_start (bp) chr_stop (bp)

Co-occuring Positively Selected Genes between species:

Search Positively Selected Genes occuring between two species:

Select species #1:	Select species #2:

Search co-occuring Positively Selected Genes between species:

All pairwise co-occuring B>Positively Selected Genes [ display ]

-home page- http://dogs.genouest.org/OMEGA

© Copyright 2005-2012 UMR6290-CNRS Last updated : July, 2012 Contact: Christophe HITTE