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Table 3 Top five SNPs associated with each of the two CD subtypes

From: Multi-view singular value decomposition for disease subtyping and genetic associations

 

SNP

Chr

MAF

HWE

Gene

 

rs6318

chrX

0.3643

1.00

HTR2C

Group 1

rs2427400

chr20

0.1280

0.22

NTSR1

vs.

rs460401

chr21

0.3500

0.18

GRIK1

Group 3

rs10485058

chr06

0.0585

0.38

OPRM1

 

rs2279423

chr15

0.0237

0.81

CHRM5

 

rs897692

chr11

0.3972

0.86

HTR3A

Group 2

rs9996854

chr04

0.5436

0.61

GABRB1

vs.

rs481036

chr01

0.5582

0.21

CHRM3

Group 3

rs6092933

chr20

0.2070

0.17

SLC32A1

 

rs9371781

chr06

0.3687

0.49

OPRM1

  1. The five SNP markers that received the largest magnitude of weights in the two classification models that separate the subtype cases, in Group 1 and Group 2, respectively, from the controls in Group 3. The SNP name, the SNP location (chromosome i.e., Chr), the name of the gene (Gene), the minor allele frequency (MAF) and the P-value for Hardy Weinberg equilibrium (HWE) are provided for each SNP.