Gene gain and loss: aCGH ISA CGH

Functional annotation of altered copy
num ber regions
Fu n ction al an n otation of ch rom osom al region s based on th e gen e on tology (GO)
an n otation s.
An n otation s for region s of gain or loss are com p ared to th e backgrou n d of
an n otation s corresp on d in g to th e rest of gen es p resen t in th e array, in
ord er to see wh eth er th is region h as an y ch aracteristic fu n ction ality or
n ot.
A Fish er exact test for con tin gen cy tables is p erform ed to look for GO
term s sign ifican tly overrep resen ted in th e ch rom osom al region stu d ied
com p ared to th e backgrou n d abu n d an ce of GO term s in th e rest of th e
gen om e.
P- valu es ad ju sted for m u ltip le testin g u sin g th e FDR m eth od .