Table 5 Analysis of the association of rare variants in the five genes included in the study.

From: Protein and functional isoform levels and genetic variants of the BAFF and APRIL pathway components in systemic lupus erythematosus

Gene

Number of variants that meet criteria

p-values including all the variants MAF < 0.05

  

1SKAT

TNFSF13B

5

0.09

TNFSF13

9

0.06

TNFRSF13B

14

0.03

TNFRSF13C

6

0.14

TNFRSF17

2

0.33

Gene

Number of variants that meet criteria

p-values including those variants MAF < 0.05 missense or frameshift

TNFSF13B

2

0.15

TNFRSF13B

8

0.006

TNFRSF13C

3

0.18

Gene

Number of variants that meet criteria

p-values including those variants MAF < 0.05 VUS, LP, P

TNFSF13B

2

0.04

TNFRSF13B

9

0.01

  1. 1SNP-set (Sequence) Kernel Association Test Method (SKAT, Asymptotic p-value). This test analyzes the association of rare variants (Minor Allele Frequency, MAF < 0.05) grouped by the gene. The p-values < 0.05 were considered significant (shown in bold).
  2. VUS variant of uncertain significance, LP likely pathogenic, P pathogenic.
  3. Only the genes that met the evaluation criteria are displayed. The rest of the genes could not be evaluated with the corresponding filter because they did not have at least two rare variants that meet the condition.
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