Query gene-to-disease associations (MIDAS) — query_gene

Given a list of gene symbols or IDs, find associated diseases across multiple evidence sources.

Usage

query_gene_diseases(
  gene_list,
  gene_id_type = "symbol",
  sources = NULL,
  min_sources = 1L,
  min_score = 0,
  evidence_types = NULL,
  scoring_method = "max",
  page = 1L,
  page_size = 20L
)

Arguments

gene_list: Character vector of gene identifiers.
gene_id_type: ID type: "symbol" (default), "entrez", or "ensembl".
sources: Character vector of source databases to query (or NULL for all).
min_sources: Minimum number of sources supporting an association (default 1).
min_score: Minimum association score (default 0).
evidence_types: Character vector of evidence types to filter by.
scoring_method: Scoring method: "max" (default) or "mean".
page: Page number (default 1).
page_size: Results per page (default 20).

Value

A tibble::tibble() of gene-disease associations with attribute "gene_mapping" containing the gene ID resolution mapping.

Examples

if (FALSE) { # \dontrun{
query_gene_diseases(c("TP53", "BRCA1"))
} # }