Table 2. Rankings of the reference genes based on geNorm, NormFinder and BestKeeper, showing both efficiency corrected and non-corrected data used in the original software and the refFinder output for the different algorithms, for the geNorm and NormFinder software.
| FS1 samples | geNorm | NormFinder | BestKeeper | |||||
|---|---|---|---|---|---|---|---|---|
| Gene | Efficiency | No efficiency correction | RefFinder | Efficiency corrected | No efficiency correction | RefFinder | Correlation Coefficient | RefFinder |
| ACTB | 13 | 13 | 13 | 13 | 12 | 12 | 14 | 1 |
| B2M | 9 | 1/2 | 1/2 | 9 | 9 | 9 | 4 | 12 |
| GAPDH | 11 | 11 | 11 | 11 | 11 | 11 | 10 | 13 |
| HMBS | 1/2 | 7 | 7 | 1 | 1 | 1 | 5 | 3 |
| HPRT1 | 7 | 3 | 3 | 7 | 3 | 3 | 1 | 9 |
| IGF1R | 8 | 5 | 5 | 8 | 8 | 8 | 6 | 8 |
| RLP13 | 14 | 14 | 14 | 14 | 14 | 14 | 12 | 14 |
| RPS18 | 12 | 12 | 12 | 12 | 13 | 13 | 13 | 4 |
| SDHA | 1/2 | 9 | 9 | 4 | 4 | 4 | 8 | 2 |
| SOX9 | 10 | 10 | 10 | 10 | 10 | 10 | 11 | 10 |
| TBP | 4 | 4 | 4 | 2 | 2 | 2 | 3 | 6 |
| TOP2B | 6 | 1/2 | 1/2 | 5 | 6 | 6 | 2 | 11 |
| UBC | 3 | 6 | 6 | 3 | 5 | 5 | 7 | 7 |
| VWHAZ | 5 | 8 | 8 | 6 | 7 | 7 | 9 | 5 |
| CIS samples | geNorm | NormFinder | BestKeeper | |||||
| Gene | Efficiency | No efficiency correction | RefFinder | Efficiency corrected | No efficiency correction | RefFinder | Correlation Coefficient | RefFinder |
| ACTB | 4 | 1/2 | 1/2 | 2 | 3 | 3 | 7 | 4 |
| B2M | 11 | 8 | 8 | 11 | 10 | 10 | 10 | 12 |
| GAPDH | 7 | 7 | 7 | 7 | 7 | 7 | 1 | 11 |
| HMBS | 3 | 1/2 | 1/2 | 1 | 1 | 1 | 4 | 2 |
| HPRT1 | 12 | 13 | 13 | 12 | 12 | 12 | 14 | 5 |
| IGF1R | 5 | 4 | 4 | 4 | 2 | 2 | 5 | 6 |
| RLP13 | 13 | 10 | 10 | 13 | 13 | 13 | 9 | 13 |
| RPS18 | 10 | 9 | 9 | 10 | 11 | 11 | 12 | 3 |
| SDHA | 6 | 3 | 3 | 6 | 4 | 4 | 6 | 1 |
| SOX9 | 8 | 11 | 11 | 9 | 8 | 8 | 11 | 8 |
| TBP | 9 | 12 | 12 | 8 | 9 | 9 | 8 | 9 |
| TOP2B | 1/2 | 5 | 5 | 5 | 5 | 5 | 2 | 7 |
| UBC | 14 | 14 | 14 | 14 | 14 | 14 | 13 | 14 |
| YWHAZ | 1/2 | 6 | 6 | 3 | 6 | 6 | 3 | 10 |
Switches in ranking from the original algorithm are marked in bold. BestKeeper rankings are based on the correlation coefficient or on the RefFinder output which is only based on the standard deviation of the Cq values.