Table 2 CHD loci reported after the time of the CARDIoGRAMplusC4D data release (2015).

From: A fast and efficient colocalization algorithm for identifying shared genetic risk factors across multiple traits

Chr

Locus

Traits

Colocalized SNP (consequence)

Gene

Known CHD locus (SNP)

PPFC (PPE)

Expressed gene (eQTL)

Protein (pQTL)

1

PRDM16

CHD, SBP, DBP

rs2493288 (Intron)

PRDM16

Yes26 (Yes26)

0.8009 (0.3471)

–

–

1

FHL3

CHD, SBP

rs34655914 (Missense)

INPP5B

Yes26 (Yes26)

0.9468 (0.0832)

SF3A3 (rs28428561); UTP11L (rs4360494); RNU6-510P (rs61776719)

–

1

SORT1

CHD, HDL

rs12740374 (3 prime UTR)

CELSR2

Yes26 (Yes26)

0.9898 (0.9997)

–

–

1

LMOD1

CHD, BMI, WC

rs2678204 (Intron)

IPO9

Yes30 (Yes30)

0.8273 (0.1627)

IPO9 (rs2494115)

–

2

FIGN

CHD, SBP

rs268263 (Intron)

AC092684.1

Yes26 (Yes26)

0.789 (0.995)

–

–

2

IRS1

CHD, HDL, TG

rs62188784 (Intergenic)

AC068138.1

Yes26 (Yes26)

0.8234 (0.4852)

–

–

3

RHOA

CHD, BMI, EDU

rs73078367 (Downstream)

NCKIPSD

Yes26 (Yes26)

0.9541 (0.5656)

–

–

3

RHOA

CHD, SBP

rs7623687 (Intron)

RHOA

Yes34 (Yes34)

0.9713 (0.2455)

–

–

4

FGF5, PRDM8

CHD, SBP, DBP

rs13125101 (Intergenic)

FGF5

Yes26 (Yes26)

0.9827 (0.4148)

–

–

5

MAP3K1

CHD, HDL, TG, WC, SBP, T2D

rs9686661 (Intron)

C5orf67

Yes26 (Yes26)

0.7755 (0.7115)

–

–

6

VEGFA

CHD, HDL, TG, BMI, WC

rs998584 (Downstream)

VEGFA

Yes26 (Yes26)

0.8376 (0.9746)

–

–

10

TSPAN14, FAM213A

CHD, RA

rs2343306 (Intron)

TSPAN14

Yes26 (No)

0.9064 (0.7279)

–

–

11

ARNTL

CHD, DBP

rs10832013 (Upstream)

ARNTL

Yes26 (Yes26)

0.9403 (0.0823)

–

–

11

SIPA1

CHD, HDL, TG

rs12801636 (Intron)

PCNX3

Yes30 (Yes30)

0.8369 (0.8945)

–

–

12

HNF1A

CHD, LDL

rs1169288 (Missense)

HNF1A

Yes30 (Yes30)

0.9645 (0.5762)

–

–

13

N4BP2L2, PDS5B

CHD, BMI

rs35193668 (Intron)

N4BP2L2

Yes26 (Yes26)

0.6785 (0.0911)

N4BP2L2 (rs9337)

–

16

CDH13

CHD, DBP

rs7500448 (Intron)

CDH13

Yes26 (Yes26)

0.9947 (1)

–

–

16

CTRB2, BCAR1

CHD, T2D

rs55993634 (Downstream)

CTRB2

Yes34 (Yes26)

0.8296 (0.3868)

BCAR1 (rs28595463)

–

17

IGF2BP1

CHD, BMI, T2D

rs11079849 (Intron)

IGF2BP1

Yes26 (Yes26)

0.8389 (0.831)

–

–

17

PECAM1, DDX5, TEX2

CHD, SBP, DBP

rs1867624 (Upstream)

RPL31P57

Yes30 (Yes30)

0.7963 (0.4276)

-

–

  1. HyPrColoc identified twenty CHD genetic risk loci—reported after the time of the CARDIoGRAMplusC4D data release in 2015—with colocalized associations across CHD and one or more of 14 related traits. See Table 1 for a full description of the table items.
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