Convert GO IDs to Gene Lists

Retrieves gene lists associated with specified Gene Ontology (GO) terms. This function extracts genes annotated to given GO IDs from the appropriate organism database.

Usage

GOID2Genelist(
  GOID = NULL,
  STID_obj = NULL,
  host_org = NULL,
  ont = "BP",
  keyType = "SYMBOL"
)

Arguments

GOID

Character vector, GO term identifiers to query

STID_obj

STID object (optional, used to extract host organism)

host_org

Character, host organism - "human" or "mouse" (if NULL, extracted from STID_obj)

ont

Character, GO ontology type - "BP", "CC", "MF", or "ALL" (default: "BP")

keyType

Character, gene identifier type - "SYMBOL" or "ENTREZID" (default: "SYMBOL")

Value

A data frame where columns are GO terms (with names as descriptions) and rows are genes. Contains gene lists for each requested GO term.

Examples

if (FALSE) { # \dontrun{
# Get gene list for specific GO terms
go_genes <- GOID2Genelist(
  GOID = c("GO:0006955", "GO:0002376"),
  host_org = "human",
  ont = "BP"
)

# View the gene list for the first GO term
head(go_genes[,1])
} # }