Get Fine Mapping

Retrieve Fine Mapping Data

• Finds and returns Fine Mapping data for the provided list of genes

• By default, this endpoint fetches data from the latest GTEx version

The retrieved data is split into pages with items_per_page entries per page

GTEx Portal API documentation

Usage

get_fine_mapping(
  gencodeIds,
  datasetId = "gtex_v8",
  variantId = NULL,
  tissueSiteDetailIds = NULL,
  page = 0,
  itemsPerPage = 250
)

Arguments

gencodeIds

A character vector of Versioned GENCODE IDs, e.g. c("ENSG00000132693.12", "ENSG00000203782.5").

datasetId

String. Unique identifier of a dataset. Usually includes a data source and data release. Options: "gtex_v8", "gtex_snrnaseq_pilot".

variantId

String. A gtex variant ID.

tissueSiteDetailIds

Character vector of IDs for tissues of interest. Can be GTEx specific IDs (e.g. "Whole_Blood"; use get_tissue_site_detail() to see valid values) or Ontology IDs.

page

Integer (default = 0).

itemsPerPage

Integer (default = 250).

Value

A tibble.

See also

Other Static Association Endpoints: get_eqtl_genes(), get_independent_eqtl(), get_multi_tissue_eqtls(), get_significant_single_tissue_eqtls(), get_significant_single_tissue_eqtls_by_location(), get_significant_single_tissue_ieqtls(), get_significant_single_tissue_isqtls(), get_significant_single_tissue_sqtls(), get_sqtl_genes()

Examples

if (FALSE) { # \dontrun{
# search by gene
get_fine_mapping(gencodeIds = c("ENSG00000132693.12",
                               "ENSG00000203782.5"))

# optionally filter for a single variant and/or one or more tissues
get_fine_mapping(gencodeIds = c("ENSG00000132693.12",
                               "ENSG00000203782.5"),
                 variantId = "chr1_153228363_A_G_b38",
                 tissueSiteDetailIds = c("Whole_Blood",
                                        "Thyroid"))
} # }