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Table 1 Top SCZ-associated genes predicted by Sherlock integrative analysis

From: Comprehensive and integrative analyses identify TYW5 as a schizophrenia risk gene

Gene

CHR

BPa

LBFb

P valuec

Supporting SNP

Cis or Trans

GWAS P valued

eQTL P valuee

FDRf

CYP21A1P

6

32146528

15.0977

3.38E-06

rs1150755

cis

1.30E-07

6.36E-09

<0.01

    

rs2854275

cis

2.26E-08

1.13E-10

 

C4A

6

31584437

14.9444

3.38E-06

rs3130614

cis

1.28E-08

5.65E-19

<0.01

    

rs2854275

cis

2.41E-06

1.13E-10

 

CSPG4P12

15

82898038

7.55567

3.38E-06

rs11635505

cis

2.57E-07

4.95E-13

<0.01

BAG6

6

31834667

7.55201

3.38E-06

rs707939

cis

4.57E-08

4.70E-13

<0.01

GLT8D1

3

52794367

7.4461

3.38E-06

rs2268023

cis

3.42E-06

3.66E-09

<0.01

PCDHA10

5

140138726

7.40982

3.38E-06

rs4451093

cis

1.28E-13

1.20E-10

<0.01

GNL3

3

52597126

7.39453

3.38E-06

rs2590838

cis

4.54E-06

8.82E-13

<0.01

TYW5

2

200598933

7.37493

3.38E-06

rs203772

cis

1.83E-08

2.74E-10

<0.01

ITIH4

3

52849336

7.35272

3.38E-06

rs6445539

cis

6.21E-09

1.17E-09

<0.01

DDAH2

6

31837338

7.34818

3.38E-06

rs707938

cis

6.04E-06

1.07E-11

<0.01

DNM1P51

15

82549305

7.3218

3.38E-06

rs12915234

cis

9.24E-13

4.34E-13

<0.01

DDHD2

8

38215456

7.30636

3.38E-06

rs6992943

cis

8.37E-07

8.02E-12

<0.01

GOLGA2P7

15

82722026

7.29214

3.38E-06

rs12906983

cis

7.03E-12

5.63E-12

<0.01

BTN3A2

6

26485364

7.17497

3.38E-06

rs9366655

cis

3.34E-14

1.34E-14

<0.01

CORO7

16

4424614

7.16594

3.38E-06

rs4785964

cis

7.76E-08

4.03E-08

<0.01

FTSJ2

7

2242519

7.11154

3.38E-06

rs7787274

cis

7.63E-07

9.36E-08

<0.01

HLA-J

6

29753592

6.93651

3.38E-06

rs3129063

cis

8.86E-06

1.70E-06

<0.01

FTCDNL1

2

200449965

6.92637

3.38E-06

rs11694369

cis

1.47E-07

8.15E-16

<0.01

ZSCAN23

6

28496744

6.84615

3.38E-06

rs2531831

cis

2.02E-06

1.78E-08

<0.01

MAPK3

16

29854171

6.73467

3.38E-06

rs11649612

cis

3.70E-06

5.00E-10

<0.01

PCDHA9

5

140228723

6.60836

3.38E-06

rs192231

cis

3.29E-07

1.10E-08

<0.01

NDUFAF7

2

37393080

6.60052

3.38E-06

rs10190959

cis

1.56E-06

1.86E-07

<0.01

ZNF204P

6

27420057

6.58274

3.38E-06

rs764284

cis

3.38E-07

1.12E-11

<0.01

  1. TYW5 was shown in bold
  2. agene locations were based on hg19
  3. bLBF logarithm of Bayes factor. The LBF score of a gene reflects the association strength between this gene and SCZ. For example, a LBF of 5.0 means that the gene is more likely to be associated with the disease (exp(5.0) = ~148 times) than no association
  4. cP value from Sherlock integrative analysis. Larger LBF corresponds to smaller P value
  5. dGWAS P value indicates the association significance between this SNP and SCZ
  6. eeQTL P value indicates the association significance between this SNP and gene expression in brain
  7. fFDR was corrected by Benjamini–Hochberg procedure
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BMC Medicine

ISSN: 1741-7015

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