Microarray Repeatability in Haploid and Diploid Replicate Experiments
| A. Repeatability in a Haploid Replicate Experiment | |
| Total number of haploid sites | 930,176 |
| Total number of haploid sites called in Replicate 1 | 853,285 (91.7%) |
| Total number of haploid sites called in Replicate 2 | 893,692 (96.1%) |
| Total haploid sites called in both replicate experiments | 841,236 (90.4%) |
| Total number of haploid sites called differently | 0 |
| Percent of haploid sites called identically | 100.0% |
| B. Repeatability in a Diploid Replicate Experiment | |
| Total number of diploid genotypes | 1,138,480 |
| Total number of diploid genotypes called in Replicate 1 | 944854 (83.0%) |
| Total number of diploid genotypes called in Replicate 2 | 913231 (80.2%) |
| Number of homozygous genotypes called identically | 812944 (71.4%) |
| Number of heterozygous genotypes called identically | 351 |
| Total number of diploid genotypes called identically | 813,295 |
| Total number of diploid genotypes called differently | 0 |
| Percent of diploid genotypes called identically | 100.0% |
[i] Replicate experiments: A replicate consists of independent amplification and hybridization of identical samples to two VDAs (for Table 2A, CWRS-10 and CWRS-10R; for Table 2B, CWRS-14R and CWRS-14R2) of the same design.
[ii] (A) Haploids. Thirty-two distinct samples were replicated. Each array probed the genotype at 29,068 sites in the FMR1 region. (B) Diploids. Forty distinct samples were replicated. Each array probed the genotype at 28,462 sites taken from the GABBR1 and ANK2 regions.