Long form: fusion() Short form: fus()
fusion() or fus() expressions can be used in place of a namespace value within a gene, RNA, or protein abundance function to represent a hybrid gene, or gene product formed from two previously separate genes. fusion() expressions take the general form:
fus(ns5':v5', "range5'", ns3':v3', "range3'")
where ns5’:v5’ is a namespace and value for the 5’ fusion partner, range5’ is the sequence coordinates of the 5’ partner, ns3’:v3’ is a namespace and value for the 3’ partner, and range3’ is the sequence coordinates for the 3’ partner. Ranges need to be in quotes.
Namespace argument of following type(s): Gene, RNA, Micro_RNA, Protein
String argument of following type(s): /\S+/
Namespace argument of following type(s): Gene, RNA, Micro_RNA, Protein
String argument of following type(s): /\S+/
The r. designation in the range fields indicates that the numbering uses the RNA sequence as the reference. RNA sequence numbering starts at the transcription initiation site. You use c._ for g() fusions and p._ for p() fusions. These r., c., and p. designations come from http://www.hgvs.org[HGVS variation description] convention.
r(fus(HGNC:TMPRSS2, "r.1_79", HGNC:ERG, "r.312_5034"))
RNA abundance of fusion with unspecified breakpoints
r(fus(HGNC:TMPRSS2, "?", HGNC:ERG, "?"))