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Table 3 Top 20 most significant variants in the GWAS analysis

From: Genome-wide association analysis identified both RNA-seq and DNA variants associated to paratuberculosis in Canadian Holstein cattle ‘in vitro’ experimentally infected macrophages

rsID

Chrom:Position

Ref/Alt

alleles

p-valuea

Gene

Ensembl ID

Impact

rs109231144

4:49533097

C/T

3.26e-08

NRCAM

ENSBTAG00000006732

MODIFIER

rs41650658

4:49535036

A/G

3.26e-08

NRCAM

ENSBTAG00000006732

MODIFIER

rs43668743

11:21401262

T/G

9.25e-08

SOS1

ENSBTAG00000011643

MODIFIER

rs43667381

11:21438609

T/A

8.89e-07

ENSBTAG00000037586

ENSBTAG00000037586

MODIFIER

rs43664819

11:12392739

T/C

9.20e-07

CYP26B1, U6

ENSBTAG00000012212

MODIFIER

rs383441105

11:21591340

G/A

1.26e-06

U6

ENSBTAG00000043391

MODIFIER

rs43387851

4:50001287

G/T

1.67e-06

NME8, SFRP4

ENSBTAG00000015353

MODIFIER

rs43668789

11:21312462

G/A

2.66e-06

ARHGEF33

ENSBTAG00000017039

MODIFIER

rs137226813

11:13989555

C/T

2.67e-06

TGFA

ENSBTAG00000000783

MODIFIER

rs134348861

11:15327632

A/G

2.70e-06

TTC27

ENSBTAG00000033010

MODIFIER

rs42051552

11:15339987

A/G

2.70e-06

TTC27

ENSBTAG00000033010

MODIFIER

rs43667373

11:21436273

G/A

3.20e-06

ENSBTAG00000037586

ENSBTAG00000037586

MODIFIER

rs379213820

11:21398019

C/G

3.20e-06

SOS1

ENSBTAG00000011643

MODIFIER

rs43666834

11:12281788

T/C

3.22e-06

EXOC6B

ENSBTAG00000020799

MODIFIER

rs41659204

11:12299398

T/C

3.22e-06

EXOC6B

ENSBTAG00000020799

MODIFIER

rs43665805

11:12321351

A/C

3.22e-06

EXOC6B

ENSBTAG00000020799

MODIFIER

rs43665815

11:12332275

A/G

3.22e-06

EXOC6B

ENSBTAG00000020799

MODIFIER

rs43665822

11:12338121

C/T

3.22e06

EXOC6B

ENSBTAG00000020799

MODIFIER

rs43667796

11:12415887

G/A

3.22e-06

CYP26B1, U6

ENSBTAG00000012212

MODIFIER

rs43663907

11:12434753

A/G

3.22e-06

CYP26B1, U6

ENSBTAG00000012212

MODIFIER

  1. aAll variants were corrected at FDR = 0.05. For low MAF variants a suggestive threshold of 5e-4 was used