Computational prediction of splicing regulatory elements shared by Tetrapoda organisms

BMC Genomics

Table 1 Intersection between putative intronic enhancers found separately for primates and outgroup clades and for the entire Tetrapoda superclass.

	Outgroup 5'SS ISEs/ISSs	Outgroup 3'SS ISEs/ISSs	Vertebrates 5'SS ISEs/ISSs	Vertebrates 3'SS ISEs/ISSs
Primates 5'SS ISEs/ISSs	62/4.96	59/18.84	577/24.73	105/65.14
Primates 3'SS ISEs/ISSs	25/7.68	278/28.46	58/47.67	1,687/130.76
Vertebrates 5'SS ISEs/ISSs	622/33.35	327/130.27	2,428/101.57	297/231.66
Vertebrates 3'SS ISEs/ISSs	127/93.11	3,166/366.87	297/231.66	6,436/480.96

Here is shown the ratio between the actual intersection and the expected intersection of the sets under the null hypothesis (expected intersection between the same number of randomly generated oligos). An intersection between the two sets of elements is calculated as the number of all the possible longest common substrings LCS of the two compared elements a and b, with the size | LCS| ≡ min(|a|,|b|), in ordered pairs (a, b) coming from the Cartesian product of the sets.

ISSN: 1471-2164