Table 1

SNPs selected as attributes for at least 5% of the Naïve Bayes Classifiers by BoNB on the WTCCC T1D dataset, with B = 200 Bootstrap samples and classifiers.

SNP

Chr

Gene

Relation

%NBCs

MU (median)


rs6679677

1

RSBN1

downstream

7

0.033

rs9266774

6

MICA

upstream

5.5

0.011

rs805301

6

BAT3

intron

17.5

0.043

rs492899

6

SKIV2L

intron

8.5

0.025

rs9273363

6

HLA-DQB1

downstream

100

0.835

rs9275418

6

HLA-DQB1

upstream

80

0.160

rs6936863

6

HLA-DQA2

upstream

8

0.08

rs9784858

6

TAP2

intron

5

0.008

rs3101942

6

LOC100294145

exon

21.5

0.045


First column: dbSNP RS ID. Second column: SNP chromosome. Third and fourth column: annotated gene and relation with the SNP. Fifth column: percentage of Naïve Bayes Classifiers that included the SNP as attribute. Sixth column: median of the marginal utility of the SNP. SNPs selected as genetic biomarkers by the permutation procedure are marked in bold.

Sambo et al. BMC Bioinformatics 2012 13(Suppl 14):S2   doi:10.1186/1471-2105-13-S14-S2

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