sym2CellOnto {ontoProc} | R Documentation |
use Cell Ontology and Protein Ontology to identify cell-type defining conditions in which a given gene is named
sym2CellOnto(sym, cl, pr)
sym |
gene symbol, must be used in protein ontology as a PRO:DNx exact match token |
cl |
result of getCellOnto() |
pr |
result of getPROnto() |
DataFrame if any hits are found. A field 'cond' abbreviates the identified conditions: (has/lacks)PMP (plasma membrane part) (hi/lo)PMAmt (plasma membrane amount), (has/lacks)Part.
Currently just checks for *plasma_membrane_part, *plasma_membrane_amount, and *Part conditions.
if (!exists("cl")) cl = getCellOnto() if (!exists("pr")) pr = getPROnto() sym2CellOnto("ITGAM", cl, pr) sym2CellOnto("FOXP3", cl, pr)