Table 1

Comparison of a standard deviation (SD) and signal to noise (S/N) ratio for a raw CN signal obtained using different types of references. Here SD is an average of all SDs obtained for each raw CN segmented region in log2 scale, and S/N is computed as a ratio of the difference between the raw CN values corresponding to CN = 3 and CN = 2 in log2 scale and the SD value defined above

FFPE Tumor vs:

Blood normals (frozen)

HapMap (frozen)

FFPE normals

VN based


SD (log2)

0.627

0.592

0.363

0.281


S/N ratio for CN = 3 (log2)

0.797

0.845

1.377

1.78


Lisovich et al. BMC Medical Genomics 2011 4:14   doi:10.1186/1755-8794-4-14

Open Data