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Table 4 Information about the 23 candidate causal MRESS SNPs have been reported to be deleterious

From: Genome-wide association study combined with biological context can reveal more disease-related SNPs altering microRNA target seed sites

SNP ID

Allele

MAF

Type

Gene

microRNA

Disease

p-value

#Reference

rs1053005

A > G

0.30

Create

STAT3

hsa-miR-4793-5p

Multiple sclerosis

0.007

2

rs1053023

A > G

0.29

Loss

STAT3

hsa-miR-4506/4640-5p

Multiple sclerosis

0.007

4

rs2116830

C > A

0.09

Create/Loss

KCNMA1

hsa-miR-2052/659

Multiple sclerosis

0.005

1

rs2057482

T > C

0.23

Create

HIF1A

hsa-miR-196a/196b/3174/3927/921

Neuroblastoma

0.002

4

rs5177

C > G

0.32

Loss

LRP8

hsa-miR-526b

Neuroblastoma

0.003

2

rs2272383

A > G

0.44

Create

TUB

hsa-miR-450a

Breast cancer

0.001

3

rs1349265

T > C

0.50

Create

THRB

hsa-miR-1468

Pancreatic cancer

0.003

1

rs788173

G > A

0.40

Create

DLX1

hsa-miR-4330

Pancreatic cancer

0.002

2

rs3751934

G > T

0.47

Create

RPTOR

hsa-miR-1231/4667-5p/4700-5p/637

Parkinson’s disease

0.002

1

rs7309

G > A

0.43

Loss/Create

TANK

hsa-miR-3941/466/4789-3p

Parkinson’s disease

0.0005

1

rs61865882

T > C

0.08

Create

EGR2

hsa-miR-499-3p/499a-3p

Prostate cancer

0.01

1

rs3160

T > C

0.38

Loss

MLST8

hsa-miR-329/362-3p/603

Prostate cancer

0.01

1

rs1064395

G > A

0.26

Create

NCAN

hsa-miR-1205/3665/4418/509-3-5p/509-5p/657

Schizophrenia/neuroblastoma

0.005

3

rs2296135

A > C

0.44

Create/Loss

IL15RA

hsa-miR-2276/4766-5p

Schizophrenia

0.002

2

rs5177

G > C

0.32

Loss

LRP8

hsa-miR-526b

Schizophrenia

2 × 10−5

2

rs1042032

A > G

0.43

Loss

EPHX2

hsa-miR-183

Systemic lupus erythematosus

0.003

2

rs1049623

A > G

0.46

Create

DDR1

hsa-miR-4499/4513

Systemic lupus erythematosus

8 × 10−5

1

rs1057972

A > T

0.48

Create/Loss

IL15

hsa-miR-4514/4692/940/1207-5p

Systemic lupus erythematosus

0.004

2

rs10954213

G > A

0.47

Create/Loss

IRF5

hsa-miR-543/4477a/4729/181a/664

Systemic lupus erythematosus

0.0007

21

rs11466285

T > C

0.08

Create

TGFA

hsa-miR-3190

Systemic lupus erythematosus

0.009

2

rs1217412

G > A

0.32

Create/Loss

PTPN22

hsa-miR-380/4495/3668

Systemic lupus erythematosus

0.005

1

rs13317

T > C

0.28

Loss

FGFR1

hsa-miR-3128/4470

Systemic lupus erythematosus

0.0008

3

rs2741918

C > T

0.38

Create

MEFV

hsa-miR-1226/4252/4733-3p

Systemic lupus erythematosus

0.005

1

rs450021

C > A

0.37

Create

MEFV

hsa-miR-4435/4645-5p/4673/4755-3p

Systemic lupus erythematosus

0.005

1

rs12613

G > A

0.08

Create

CBS

hsa-miR-3664-5p/3944-5p

Type 2 diabetes

0.0002

2

rs2336219

G > A

0.25

Create

ERCC1

hsa-miR-4698/545/548p

Type 2 diabetes

0.001

1

rs735482

A > C

0.34

Create

ERCC1

hsa-miR-4475

Type 2 diabetes

0.001

5

  1. ‘A > G’ denote allele A as the reference allele and G as the variant allele. The ‘Type’ column denotes the effect of the variant allele to the given microRNA-gene interactions, a type of ‘Create/Lose’ means the variant allele of the SNP can create some of the given interactions while eliminate others.