Table 8

The proportion of sites with a SNP depending on distance from an exon boundary (a) comparing ESE and non-ESE and (b) comparing ESE and nucleotide matched pseudoESE
Dataset Median ESE Median non-ESE % Difference P two-sided
A
RESCUE 0.03 0.036 -16.7 1.60E-28
PESE 0.031 0.036 -13.9 7.10E-27
ESR 0.031 0.038 -18.4 8.30E-30
Ke-ESE400 0.04 0.032 25 6.20E-30
Ke-ESE 0.036 0.03 20 1.20E-31
INT3.400 0.029 0.035 -17.1 1.30E-22
INT3 0.029 0.035 -17.1 9.60E-25
INT2.400 0.031 0.036 -13.9 2.10E-24
INT2 0.032 0.036 -11.1 4.10E-23
B
RESCUE 0.03 0.031 -3.2 2.70E-18
PESE 0.031 0.033 -6.1 7.80E-18
ESR 0.031 0.034 -8.8 2.30E-26
Ke-ESE400 0.04 0.036 11.1 1.60E-26
Ke-ESE 0.036 0.035 2.9 7.30E-18
INT3.400 0.029 0.034 -14.7 4.20E-24
INT3 0.029 0.035 -17.1 5.70E-27
INT2.400 0.031 0.035 -11.4 1.20E-27
INT2 0.032 0.035 -8.6 1.80E-28

Statistics are from a paired test in which we compare the proportion of sites with a SNP within an ESE with sites equidistant from an exon junction but (a) not in an ESE or (b) in a pseudoESE, using a Wilcoxson paired test. Percentage difference is defined as (Median for ESE -Median for non-ESE)/Median for non-ESE. All tests are significant after Bonferonni correction (for consistency the P values are shown in bold).

Cáceres and Hurst

Cáceres and Hurst Genome Biology 2013 14:R143   doi:10.1186/gb-2013-14-12-r143

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