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Table 3 Regions of adipose tissue DNA altered in the high burden group compared to the control that resulted in a minimum adjusted p-value < 10− 6

From: DNA methylation in the adipose tissue and whole blood of Agent Orange-exposed Operation Ranch Hand veterans: a pilot study

Chrm.

Number of CpGs

pval

Stouffer-adjusted pval

Max beta-fold change

Mean beta-fold change

Overlapping Genes

2

9

8.26E-15

1

−0.077

− 0.057

SNORA64, SNORA12, SNORA74, SNORA19, PAX8-AS1, snR65, 5S_rRNA, SNORA4, SNORD11, SNORD51, SNORA41, SCARNA6, SNORD39, SNORA75, ACA59, PAX8, SNORA48, SNORD56, SNORA43, SNORA1, Vault

13

5

8.32E-13

1

−0.046

−0.038

SNORD36

1

8

7.11E-11

1

−0.058

−0.027

snoU13, Y_RNA, SCARNA16, U1, SCARNA17, SCARNA18, SCARNA24, SNORD112, SNORA62, SNORA63, C1orf50, SNORD46, SNORA2, SNORD81, U3, SNORA51, SNORA25, SCARNA20, SNORA67, U6, SNORA70, SNORA77, SNORA26, U8, SCARNA11, SNORA31, SNORA42, SNORA40, SNORD64, ACA64, snoU109, SNORD60, SNORD116

20

9

7.97E-11

1

−0.076

−0.053

LINC00654

6

21

3.67E-09

1

−0.050

−0.024

SNORA38, LY6G5C, SNORA20

19

25

1.76E-08

1

−0.035

−0.011

USP29

1

5

1.83E-08

1

−0.058

− 0.044

snoU13, Y_RNA, SCARNA16, SCARNA21, U1, SCARNA17, SCARNA18, SCARNA24, SNORD112, SNORA62, SNORA63, SNORD46, SNORA2, SNORD81, U3, SNORA51, SNORA25, SCARNA20, SNORA67, U6, SNORA70, SNORA77, SNORA26, U8, SCARNA11, SNORA31, SNORA42, SNORA40, SNORD64, ACA64, snoU109, SNORD60

5

12

2.98E-08

1

−0.068

−0.014

SLC9A3

17

12

6.86E-08

1

−0.058

−0.025

C17orf107, CHRNE

7

16

9.88E-08

1

0.071

0.013

YWHAG

11

10

1.61E-07

1

−0.042

−0.030

LSP1, SLC6A5

  1. Data generated using the DMRcate algorithm from Bioconductor. The “pval” is a minimum adjusted p-value generated by the DMRcate algorithm, and we used a significance cutoff of 1e-6 when comparing methylation across the adipose tissue DNA regions in the Ranch Hand veterans with high serum TCDD (n = 11) levels compared to the control group (n = 12). The Stouffer-adjusted p-value is also calculated by DMRcate. The max and mean beta-fold change indicate differences in methylation levels between the highly burdened and control groups. The “Overlapping Genes” column indicates the genes associated with the region of DNA studied