Single SNP QTL MR evidence — xqtl_single_snp

GET /xqtl/single-snp-mr

xqtl_single_snp_mr(
  exposure_gene = NULL,
  outcome_trait = NULL,
  snp = NULL,
  qtl_type = c("eQTL", "pQTL"),
  pval_threshold = 1e-05,
  mode = c("table", "raw")
)

Arguments

exposure_gene: Name of the exposure gene
outcome_trait: Name of the outcome trait
snp: SNP rsid
qtl_type: "eQTL" or "pQTL"
pval_threshold: P-value threshold
mode: If mode = "table", returns a data frame (a tibble as per tidyverse convention). If mode = "raw", returns a raw response from EpiGraphDB API with minimal parsing done by httr.

Value

Data from GEET /xqtl/single-snp-mr

Examples

# \dontrun{
xqtl_single_snp_mr(outcome_trait = "Coronary heart disease")
#> # A tibble: 489 × 8
#>    gene.ensembl_id gene.name gwas.id gwas.trait    r.beta   r.se      r.p r.rsid
#>    <chr>           <chr>     <chr>   <chr>          <dbl>  <dbl>    <dbl> <chr> 
#>  1 ENSG00000147889 CDKN2A    ieu-a-7 Coronary hea… -2.95  0.202  4.98e-48 rs702…
#>  2 ENSG00000173207 CKS1B     ieu-a-7 Coronary hea…  0.769 0.0943 3.34e-16 rs140…
#>  3 ENSG00000134222 PSRC1     ieu-a-7 Coronary hea… -0.231 0.0297 7.40e-15 rs497…
#>  4 ENSG00000140403 DNAJA4    ieu-a-7 Coronary hea… -1.37  0.193  1.12e-12 rs290…
#>  5 ENSG00000197520 FAM177B   ieu-a-7 Coronary hea…  0.278 0.0417 2.84e-11 rs340…
#>  6 ENSG00000147883 CDKN2B    ieu-a-7 Coronary hea… -1.20  0.182  4.09e-11 rs218…
#>  7 ENSG00000160179 ABCG1     ieu-a-7 Coronary hea… -1.21  0.186  8.17e-11 rs7412
#>  8 ENSG00000105204 DYRK1B    ieu-a-7 Coronary hea… -1.30  0.204  1.93e-10 rs110…
#>  9 ENSG00000135631 RAB11FIP5 ieu-a-7 Coronary hea… -1.20  0.188  1.93e-10 rs110…
#> 10 ENSG00000154845 PPP4R1    ieu-a-7 Coronary hea… -1.38  0.216  1.93e-10 rs110…
#> # … with 479 more rows
# }