Table 2

MRESS SNPs in LD with GWAS variants and showing co-expression of miR and mRNA.

GWAS SNP

P-value

Phenotype

PID

LD

PhastCon

Proxy

Maf

FST

Gene

miR

Allele

SVR

S-T

Co

eQTL


rs10089

2.00E-06

Ileal carcinoids

21139019

1

0.6692

rs10089

0.35

0.08

SLC12A2

hsa-miR-421

C/T

-0.682

8mer

23

NA

rs6504340

6.00E-07

Primary tooth dev

20195514

0.9

0.6635

rs1042822

0.18

NA

HOXB2

hsa-miR-186

G/T

-1.341

8mer

62

NA

rs328

9.00E-23

HDL cholesterol

18193044

0.93

0.685

rs1059611

0.13

0.03

LPL

hsa-miR-136

T/C

-0.635

7mer-m8

36

NA

rs10503669

4.00E-19

18193043

0.93

rs12678919

2.00E-34

19060906

0.93

rs17482753

3.00E-11

20031538

0.93

rs325

8.00E-26

20864672

rs6590330

2.00E-25

Systemic lupus erythematosus

19838193

1

0.8332

rs1128334

0.06

0.44

ETS1

hsa-miR-381

C/T

-1.166

7mer-m8

33

F

rs1128334

2.00E-11

20169177

rs10941694

9.00E-06

Chronic kidney disease and serum creatinine concentration

20686651

1

0.7345

rs12522910

0.14

NA

HCN1

hsa-miR-653

T/C

-1.352

8mer

9

NA

rs326

5.00E-12

Triglycerides

18193046

0.96

0.6217

rs13702

0.14

0.42

LPL

hsa-miR-410

T/C

-1.159

8mer

19

NA

rs2083637

2.00E-10

Metabolic Syndrome

20694148

0.92

rs10105606

4.00E-26

Hypertriglycerdemia

20864672

0.82

rs1008953

1.00E-07

Psoriasis

20953189

1

0.651

rs2245717

0.86

0.4

SYS1

hsa-miR-150

T/G

-0.704

8mer

49

L, F

rs1443512

6.00E-16

Waist-hip ratio

20935629

0.81

0.581

rs4759058

0.78

HOXC13

hsa-miR-503

C/A

-0.755

7mer-m8

29

NS

rs504963

2.00E-08

Crohn's disease

20570966

1

0.5968

rs485073

0.63

NA

FUT2

hsa-miR-186

A/G

-1.181

7mer-m8

63

NA

rs281379

7.00E-12

21102463

0.9

rs504963

2.00E-08

Crohn's disease

20570966

1

0.5968

rs603985

0.63

NA

FUT2

hsa-miR-186

T/C

-1.181

7mer-m8

63

NA

rs281379

7.00E-12

21102463

0.9

rs10923931

4.00E-08

Type 2 diabetes

18372903

1

0.5784

rs835576

0.07

NOTCH2

hsa-miR-218

T/C

-0.718

8mer

31

F, L

rs1295686

1.00E-07

Asthma

20860503

0.96

0.581

rs847

0.76

0.31

IL13

hsa-miR-381

T/C

-1.159

7mer-m8

33

F

rs20541

5.00E-15

Psoriasis

19169254

0.96


All minor allele frequencies (MAF) reported are for the CEU pilot panel of the 1000 Genomes Project, except where indicted. Abbreviations: PID = PubMed accession, SVR = miRSVR score, PhastCon = conservation score, S-T = seed type. Co = The number of cell and tissue samples in the mimiRNA database for which co-expression of miR and mRNA were found. eQTL = Reports available eQTL data in the mUTHER study, where F = -Fat cell biopsy (n = 160), L = LCL cells (n = 166), and S = skin cell biopsy (n = 160).

Richardson et al. BMC Genomics 2011 12:504   doi:10.1186/1471-2164-12-504

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