Table 1.

Genetic Alterations Detected after Whole Genome Amplification

	With ligation step				Without ligation step
	10 ng§	50 ng	150 ng	300 ng	10 ng	50 ng	150 ng	300 ng
TP53 mutations*
0.5 hour†	+, +	+, +	+, +	+, +	No WGA product¶
1.0 hour	+, −	+, +	+, +	+, +	No WGA product
1.5 hours	+, −	−, −	+, −	+, +	+, +	+, +	+, +	+, +
2.0 hours	nd	nd	nd	nd	+, +	+, +	+, +	+, +
3.0 hours	−, −	−, −	+, −	+, −	+, −	+, −	+, +	+, +
EGFR amplification
0.5 hour	nd	+	−	+	No WGA product
1.0 hour	−	−	+	+	No WGA product
1.5 hours	−	+	−	−	nd	+	+	+
2.0 hours	nd	nd	nd	nd	−	+	+	+
3.0 hours	−	+	−	+	−	+	+	+
LOH 1p‡
0.5 hour	nd	+, −	+, +	+, +	No WGA product
1.0 hour	−, −	−, −	+, +	+, +	No WGA product
1.5 hours	−, −	+, +	−, −	+, −	−, −	−, −	+, +	+, +
2.0 hours	nd	nd	nd	nd	−, −	+, −	+, +	+, +
3.0 hours	−, −	+, −	+, −	+, −	−, −	+, +	+, −	+, −
LOH 10q
0.5 hour	nd	+	+	+	No WGA product
1.0 hour	−	+	+	+	No WGA product
1.5 hours	+	+	+	+	−	−	+	+
2.0 hours	nd	nd	nd	nd	−	−	−	−
3.0 hours	−	+	+	+	−	+	+	−
LOH 19q
0.5 hour	nd	+	+	+	No WGA product
1.0 hour	−	+	+	+	No WGA product
1.5 hours	+	+	−	+	−	+	+	+
2.0 hours	nd	nd	nd	nd	+	−	+	+
3.0 hours	−	+	+	+	−	+	+	+

^*Results on TP53 mutations were scored as +, +, both TP53 mutations detected in exon 7 (ATG->ATA, codon 237) and in exon 8 (GTT->CTT, codon 274); +, −, one of the two mutations detected; −, −, none of the mutations detected.

^†Reaction time with Phi29.

^‡Results on LOH were scored as +, +, LOH 1p (D1S2736/D1S468) detected in both tumors 1 and 2; +, −, one of the two LOH detected; −, −, none of the LOH detected.

^§Amount of template DNA before WGA.

^¶Amount of DNA after WGA was not different from those before WGA in any sample irrespective of different amount of template DNA; nd, not determined.