Comparison of Whole Genome Amplification Methods for Analysis of DNA Extracted from Microdissected Early Breast Lesions in Formalin-Fixed Paraffin-Embedded Tissue
Table 1
Quantitative real-time PCR results compared with array CGH.
cDNA clone
Gene
Location
Gene relative quantity by Q-PCR
Copy number by aCGH
Control
SCOMP
DOP
H17813
TOP2A
17q21
5.86
++
+++
N
H59203
CDC6
17q21.3
2.87
+++
++++
N
H23044
TEM7
17q21.1
2.45
++
+++
+
H64260
PRKAG2
7q35
2.23
N
N
N
H18802
Link-GEFII
17q21.1
2.19
++++
++++
+
H46384
PRO2521
17q21.1
2.18
++++
++
N
T85025
1.97
++++
++++
N
H29706
GPC5
13q32
1.79
+++
++++
N
H59714
AK2
1p34
1.58
++
+++
N
321749
1.55
+
+++
N
H20867
PCDH9
13q14.3
1.46
+++
++++
N
H93272
CPM
12q15
1.42
+
+
N
AA011584
1.38
+
++
+
W24419
1.36
+++
+
N
H85791
1.32
+ + +
+
H01255
CLN5
13q21.1
1.22
+++
++
+
H62028
DYRK3
1q32
1.18
+
+
+
H14685
PTK2
8q24
1.06
N
N
N
R06520
PRKCBP1
20q13.12
0.98
N
N
N
R24935
CDA08
16q11.2
0.76
−
N
N
H46055
KIAA0725
8p11.21
0.75
+
N
N
H53288
BAG4
8p11.21
0.71
N
N
N
“−” Ratio less than 0.7, , “+” ratio greater than 1.3. “++” Ratio greater than 2, “+++” ratio greater than 3, “++++” Ratio greater than 5.
