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Table 1 Top SNPs from the GWAS on FHCDAE and NoA

From: Genetic dissection of canine hip dysplasia phenotypes and osteoarthritis reveals three novel loci

Trait

Chr

Locus

Alleles

N per SNP

SNP(s)

P-value from FASTA(f), corrected with the inflation factor lambda (λFHCDAE = 1.000, λNoA = 1.003)

FHCDAE

9

31,477,907

31,387,114

G/A

A/G

642

642

BICF2G630834826

BICF2P742007

1.57 × 10–6

2.13 × 10–6

28

29,111,565

29,122,985

A/C

G/A

627

643

BICF2P1046032

BICF2P895332

1.62 × 10–6

2.86 × 10–6

NoA

9

31,477,907

31,387,114

36,694,174

G/A

A/G

A/G

642

642

640

BICF2G630834826

BICF2P742007

BICF2G630837307

2.22 × 10–6

5.26 × 10–6

9.78 × 10–6

25

10,301,514

A/C

640

BICF2G630468961

9.66 × 10–6

  1. Single-nucleotide polymorphisms (SNPs) with probability values (P-values) < 1.0 × 10–5 are listed. SNPs and the corresponding P-values are in bold font, if the P-value passed the threshold for genome-wide significance (1.82 × 10–6) determined with the estimated number of independent tests from SimpleM (see methods). (f)Family-based score test for association (FASTA). Chr = chromosome. N refers to the number dogs in analysis after exclusion of dogs by FASTA because they lack either the phenotype or a covariate. Covariates for NoA: age at radiographing, genetic cluster, genotyping batch, evaluator. Covariates for FHCDAE: age at radiographing, genetic cluster, and genotyping batch. See also Additional file 1