Table 3 Summary of problem allele calls in arrays utilizing different quantities of starting DNA
From: Reproducibility and reliability of SNP analysis using human cellular DNA at or near nanogram levels
A. duplicate samples | ||||
|---|---|---|---|---|
Type of problems | DNA quantity (ng) | |||
200 | 66.7 | 22.2 | 7.4 | |
NC in both samples | 1235 | 1313 | 1459 | 2077 |
NC in one sample, call in the other | 1778 | 2212 | 2829 | 5319 |
Different calls in two samples | 17 | 22 | 22 | 48 |
Total problem calls | 3030 | 3547 | 4310 | 7444 |
Problem call % | 0.42 | 0.49 | 0.59 | 1.02 |
B. triplicate samples | ||||
Type of problems | DNA quantity (ng) | |||
2.47 | 0.8 | |||
NC in all samples | 3022 | 5876 | ||
NC in two samples, call in the third one | 4618 | 11097 | ||
NC in one sample, different calls in the other two | 316 | 738 | ||
NC in one sample, same calls in the other two | 13304 | 29421 | ||
Subtotal | 18238 | 41256 | ||
Calls in all three, 1 incorrect call* | 199 | 391 | ||
Calls in all three, 2 incorrect calls* | 35 | 148 | ||
Calls in all three, correctness uncertain* | 6 | 4 | ||
Subtotal | 240 | 543 | ||
Total problem calls | 21500 | 47675 | ||
Problem call % | 3.00 | 6.58 | ||