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Table 2 Overview of blood and skin SMR analyses detailing tissue-specific and common BCC susceptibility genes

From: Genetic and functional interaction network analysis reveals global enrichment of regulatory T cell genes influencing basal cell carcinoma susceptibility

Tissue

Number of SMR genes

Sample size

Number of probes tested

P value threshold of multiple correction

 Blood (eQTLGen)

46

31,684

15,652

3.19E−06

 Skin_Sun_Exposed (GTEx)

25

243

6557

7.63E−06

 Skin_Not_Sun_Exposed (GTEx)

21

216

5252

9.52E−06

 Whole_Blood (GTEx)

20

360

4459

1.12E−05

 Overall number of unique elements

63

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Tissue

Number of overlapping genes

Gene name

 Blood (eQTLGen)

 Skin_Not_Sun_Exposed (GTEx)

 Skin_Sun_Exposed (GTEx)

 Whole_Blood (GTEx)

7

SPIRE2, CDK10, HLA-DRB1, HLA-DQA2, AL133458.1, RNASET2, CASP8

 Blood (eQTLGen)

 Skin_Not_Sun_Exposed (GTEx)

 Skin_Sun_Exposed (GTEx)

1

ALS2CR12

 Blood (eQTLGen)

 Skin_Sun_Exposed (GTEx)

 Whole_Blood (GTEx)

1

SPATA2L

 Skin_Not_Sun_Exposed (GTEx)

 Skin_Sun_Exposed (GTEx)

 Whole_Blood (GTEx)

2

HLA-DOB, HLA-DRB6

 Blood (eQTLGen)

 Skin_Sun_Exposed (GTEx)

3

CLPTM1L, RP11-104N10.1, ALKBH5

 Blood (eQTLGen)

 Skin_Not_Sun_Exposed (GTEx)

3

SMC2, TGM3, NCOA6

 Blood (eQTLGen)

 Whole_Blood (GTEx)

7

RCC2, SPG7, PADI6, SPATA33, MAP1LC3A, CDKN2B, AP003774.1

 Skin_Not_Sun_Exposed (GTEx)

 Skin_Sun_Exposed (GTEx)

7

DBNDD1, TCF19, ASIP, PSORS1C3, HLA-DQA1, KRT6C, POU5F1

Tissue

Number of unique genes

Gene name

 Blood (eQTLGen)

24

VDR, RP1-167A14.2, GGT7, IRF4, EIF2S2, TAP2, TRPC4AP, BNC2, AC007256.5, RP11-875O11.1, GAS8, RPS6KA2, ZNF276, CCR6, PES1, BACH2, CASP10, TP53, TP53INP2, CTLA4, AC137932.6, CHMP4B, STRADB, TICAM1

 Skin_Sun_Exposed (GTEx)

4

FANCA, SEMA6C, CTSS, URAHP

 Skin_Not_Sun_Exposed (GTEx)

1

FGFR1OP

 Whole_Blood (GTEx)

3

CHMP1A, HLA-DRB9, SPAG1

  1. Table revealing the number of SMR genes, sample size, number of probes tested, and multiple correction threshold in each tissue and the SMR genes unique to each tissue-gene dataset and list of SMR genes common among datasets. In the eQTLGen dataset, the gene name SPATA33 is aliased as C16orf55. To ease gene comparison analyses, C16orf55 was changed to SPATA33 in the eQTLGen results