We confirmed 10 of 11 neurodevelopmental deletion events (91%) with qPCR; the one unconfirmed deletion was near the 9q34 telomere and was excluded from the neurodevelopmental burden analysis (see Supplementary Methods, available online). We also confirmed 12 of 14 duplication events (86%) with 1 or 2 sets of primers. The two remaining duplications could not be confirmed but had qPCR results trending towards duplication. Of note, the LRR and BAF plots (Figure S6, available online) strongly supported all CNV events with the exception of the unconfirmed 9q34 deletion.
