Table 1

Agreement between prediction programs

Program

MAPP (%)

SIFT (%)

VarioWatch (%)

PolyPhen-2 (%)

MAPP

100

SIFT

64.6

100

VarioWatch

59.4

62.9

100

PolyPhen-2

71.4

64.2

62.9

100

For the off-diagonal values, this table looks at pairwise agreements between the four prediction programs in predicting whether a variant is tolerated or deleterious. For example, 64.6% of the time, MAPP and SIFT agreed on their prediction, whereas VarioWatch and SIFT only agreed 62.9% of the time. The highest agreement is between MAPP and PolyPhen-2, and the lowest agreement is between MAPP and VarioWatch.

Jaffe et al. BMC Proceedings 2011 5(Suppl 9):S13   doi:10.1186/1753-6561-5-S9-S13