Table 5

Correlation between DNA methylation and transcription in the candidate genes

Tissue

Methylation Candidate

CpG ID

Gene Transcript

Transcript ID

Correlation¹

P value

Blood

MSX1

cg14167596

APOE

ILMN_1740938

0.76

< 0.001

cg11930592

ATP6AP1

ILMN_1697694

0.32

0.03

cg15755084

0.32

0.03

cg20891301^a

-0.30²

0.04

cg26615830

0.32

0.03

cg15696627

0.44

0.002

cg03717979

0.51

< 0.001

cg15755084

PRSS21

ILMN_2382964

-0.38

0.01

cg15696627

-0.37

0.01

cg20588069

-0.42

0.003

cg06677140

-0.29

0.04

cg09573795

ILMN_1774256

-0.34

0.02

cg03199651

-0.30

0.04

cg20588069

-0.36

0.01

cg22609784

-0.31

0.03

cg15696627

RCOR1

ILMN_1743421

-0.28

0.05

cg03717979

ILMN_1743421

-0.29

0.04

cg06677140

ILMN_1743421

-0.38

0.01

Placenta

CDK2

cg09106999

GRB10

ILMN_1667771

-0.32³

0.03

cg00129774

ILMN_1669617

0.51

< 0.001

cg00129774

ILMN_2340919

0.46

0.001

cg04108502

0.37

0.01

cg09304040

PGRMC1

ILMN_1684771

-0.34

0.02

cg09106999

RGS14

ILMN_1696828

-0.31

0.03

EVPL

cg24697031

EVPL

ILMN_1727288

-0.30

0.04

GRB10

cg20651681

CDK2

ILMN_1653443

-0.29

0.04

cg15774495

-0.28

0.05

cg06790324

-0.36

0.01

cg06386517

GRB10

ILMN_1669617

0.34

0.02

cg20651681

0.39

0.01

cg06790324

0.29

0.04

cg03104936

0.29

0.05

cg03104936

ILMN_1652662

0.37

0.01

cg06386517

ILMN_2340919

0.33

0.02

cg20651681

0.34

0.02

cg24183958

0.38

0.01

cg06790324

0.39

0.01

cg20651681

PGRMC1

ILMN_1684771

-0.30

0.04

cg03104936

-0.29

0.05

cg20651681

RGS14

ILMN_1696828

-0.34

0.02

NAT8L

cg08211091

GRB10

ILMN_1669617

-0.31

0.03

¹ Pearson correlation coefficient

² MSX1 has five CpGs that are positively correlated with ATP6AP1, however, cg20891301, which is anomalously negatively correlated is located at the end of the CpG island

³ CDK2 has three CpGs that are positively correlated with GRB10, however, one CpG, cg09106999 is negatively correlated

Turan et al. BMC Medical Genomics 2012 5:10   doi:10.1186/1755-8794-5-10