Table 1.
Sequencing platforms |
|||||||
---|---|---|---|---|---|---|---|
n | % | Diagnostic N = 9 | Research N = 22 |
Diagnostic/research, N = 20 | P-valuea | ||
Panel size (genes) | |||||||
Small | < 50 | 23 | 45 | 6 (67%) | 7 (32%) | 10 (50%) | 0.17 |
Medium | 51–250 | 28 | 55 | 5 (56%) | 14 (64%) | 9 (45%) | 0.48 |
Large | 251–1000 | 26 | 51 | 4 (44%) | 11 (50%) | 11 (55%) | 0.86 |
Very large | 1001–5000 | 7 | 14 | 0 (0%) | 4 (18%) | 3 (15%) | 0.40 |
WES | 28 | 55 | 2 (22%) | 16 (73%) | 10 (50%) | 0.03 | |
WGS | 22 | 43 | 0 (0%) | 14 (64%) | 8 (40%) | 0.01 | |
RNAseq | 30 | 59 | 3 (33%) | 16 (73%) | 11 (55%) | 0.12 | |
Transcriptomics | 21 | 41 | 3 (33%) | 13 (59%) | 5 (25%) | 0.07 | |
Sequencing depth | |||||||
<25 | 1 | 2 | 0 (0%) | 0 (0%) | 1 (5%) | 0.37 | |
25–50 | 2 | 4 | 0 (0%) | 0 (0%) | 2 (10%) | 0.15 | |
51–100 | 15 | 29 | 0 (0%) | 7 (32%) | 8 (40%) | 0.02 | |
101–250 | 10 | 20 | 0 (0%) | 5 (23%) | 5 (25%) | 0.08 | |
251–1000 | 20 | 39 | 9 (100%) | 8 (36%) | 3 (15%) | 0.21 | |
>1000 | 3 | 6 | 0 (0%) | 2 (9%) | 1 (5%) | 0.37 | |
Certification | |||||||
ISO | 11 | 22 | 2 (22%) | 4 (18%) | 5 (25%) | 0.53 | |
CLIA | 18 | 35 | 5 (56%) | 5 (23%) | 8 (40%) | 0.61 | |
NEN/similar | 15b | 27 | 4 (44%) | 5 (23%) | 5 (25%) | 0.93 | |
None | 20b | 39 | 1 (5%) | 12 (60%) | 6 (30%) | 0.01 |
P-value represents χ2 testing comparisons between the intent of the particular initiatives.
One initiative did not indicate their intent.
ISO, international organization for standardization; CLIA, clinical laboratory improvement amendments; NEN, Netherlands Standardization Institute.