Table 1 Novel associations in SCC-GWAS meta-analysis.

From: Genome-wide meta-analysis identifies eight new susceptibility loci for cutaneous squamous cell carcinoma

SNP

Chr

Position

Locus

Gene

Major allele

Minor allele

MAF

Odds ratio (95% CI)

Direction

p-value

rs10399947

1

150861960

1q21.3

ARNT--[]--SETDB1

G

A

0.368

0.94 (0.92–0.96)

−, −, −, −, −, +

6.65E-09

rs10200279

2

202170655

2q33.1

[ALS2CR12]

C

T

0.287

1.07 (1.05–1.10)

+,+,+,+,+, +

2.67E-09

rs10944479

6

90880393

6q15

[BACH2]

G

A

0.189

0.91 (0.89–0.94)

−, −, −, −, −, N

3.75E-09

rs7834300

8

116611632

8q23.3

[TRPS1]

C

G

0.438

1.07 (1.05–1.09)

+,+,+,+, −,+

2.01E-09

rs1325118

9

12619616

9p23

[]--TYRP1

T

C

0.304

0.94 (0.91–0.96)

−, −, −, −, +, −

4.38E-08

rs7939541

11

9590389

11p15.4

ZNF143--[]--WEE1

T

C

0.410

1.08 (1.06–1.10)

+,+,+,+,+, +

9.23E-12

rs657187

12

52898985

12q13.13

KRT6A--[]--KRT5

A

G

0.420

0.93 (0.92–0.96)

−, −, −, −, −, −

1.80E-09

rs721199

12

96374057

12q23.1

[HAL]

C

T

0.463

0.94 (0.92–0.96)

−, −, −, −, −, −

3.55E-08

  1. MAF: minor allele frequency, CI: confidence interval, build GRCh37. [] represents location of SNP either in relationship to known genes with [gene] indicating SNP is within the gene and gene—[]—indicating intergenic SNPs. Minor allele is effect allele. Minor allele frequency (MAF) is based on the pooled meta-analysis. Direction is listed in order for 23me, deCODE, NHS/HPFS, Kaiser, Ohio, and Rotterdam. N means not included in analysis.
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