Table 3.
Intra-laboratory allelic percent concordance for blinded continuous quality control testinga, by HLA locus, T1DGC, July 4, 2009
| Source network | Plates | Quality control samples | A | B | C | DPA1 | DPB1 | DQA1 | DQB1 | DRB1 | SNPb: CTLA4 | SNP: INS-23 HphI | All loci |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Asia-Pacific | 22 | 87 | – | – | – | – | – | – | – | – | – | 98.9 | 99.9 |
| European | 55 | 219 | – | 99.1 | – | – | 99.5 | – | – | 98.2 | 98.6 | – | 99.5 |
| North American I | 60 | 238 | 97.9 | 98.3 | 99.6 | – | – | – | – | – | – | – | 98.6 |
| North American II | 60 | 238 | – | – | – | – | 97.9 | 99.6 | 99.2 | 98.7 | 99.2 | 99.2 | 99.1 |
| United Kingdom | 6 | 24 | – | – | – | – | – | – | – | – | 95.8 | – | 99.6 |
| Total | 143 | 568 | 99.1 | 98.9 | 99.8 | – | 98.9 | 99.8 | 99.6 | 98.8 | 98.9 | 99.5 | 99.3 |
Four quality control samples are included on each plate. ‘–’ indicates 100% concordance between original and blinded quality control repeat alleles. Empty cells for North American (NA I and NA II) Laboratories are the HLA class loci that they do not genotype. Identical samples were assayed separately by NA I and NA II and are only counted once in plate and sample totals. The European Laboratory genotyped all United Kingdom Network samples.
SNP: single nucleotide polymorphisms.