Table 1.
Q.C. Analysis of Microarray Results
| Specimen I.D. | Present Call (%) | Background | Noise | Scaling Factor | 3'/M Ratio GAPDH |
| BCC26 | 49.9 | 52.6 | 1.82 | 0.94 | 14.56 |
| JT2 | 50.2 | 63.6 | 2.05 | 0.795 | 1.41 |
| JT3 | 49.9 | 53.85 | 1.74 | 1.037 | 1.27 |
| BCC4 | 48.8 | 55.72 | 1.87 | 0.868 | 1.82 |
| JT6 | 41.8 | 50.33 | 1.56 | 2.431 | 2.46 |
| JT11 | 39 | 48.93 | 1.58 | 3.173 | 2.17 |
| JT8 | 43 | 46.94 | 1.48 | 2.463 | 1.95 |
| JT9 | 46.5 | 53.85 | 1.71 | 1.434 | 1.66 |
| T16 | 43.4 | 51.87 | 1.62 | 1.896 | 3.25 |
| JT12 | 38.1 | 53.09 | 1.7 | 2.709 | 2.86 |
| JT13 | 47.1 | 54.46 | 1.67 | 1.374 | 1.67 |
| JT4 | 46.5 | 55.73 | 1.77 | 1.18 | 1.66 |
| JT5 | 45.8 | 53.86 | 1.75 | 1.453 | 1.86 |
| T24 | 38.5 | 57.3 | 1.83 | 2.905 | 3.0 |
| T25 | 34.1 | 56.57 | 1.77 | 3.988 | 3.1 |
| T28 | 34.3 | 56.32 | 1.79 | 3.771 | 3.6 |
| JT7 | 39.6 | 48.25 | 1.56 | 3.098 | 2.52 |
| T11 | 43.3 | 50.10 | 1.61 | 2.416 | 2.1 |
| T19 | 32.2 | 54.24 | 1.7 | 4.539 | 3.1 |
| T22 | 29.1 | 49.14 | 1.59 | 6.639 | 5.86 |
| N1 | 46.6 | 46.38 | 1.46 | 1.571 | 1.67 |
| N2 | 44.0 | 47.85 | 1.56 | 1.565 | 1.8 |
| N3 | 42.5 | 50.84 | 1.63 | 2.105 | 2.46 |
| N5 | 46.7 | 48.96 | 1.54 | 1.417 | 1.85 |
| N6 | 46.2 | 46.92 | 1.44 | 1.821 | 2.39 |
Note: Acceptable Q.C. cut-offs, based on high quality cell line RNA analysis, for background is <100; noise <3; scaling factor <3 fold between specimens being compared; 3'/M ratio <3 (Affymetrix Inc. "Genechip® Expression Analysis Data Analysis Fundamentals" [16]).