5. Differences in sensitivity (upper right triangle) and specificity (bottom left triangle) from analyses using FISH as the reference standard. Values are test in column minus test in row (95% credible interval). Positive values favour the test defining the column, negative values favour the test defining the row.
| Test | PCR‐based LOH | SNP array | NGS | CGH | aCGH | MLPA | Real‐time PCR | CISH | MS | NanoString |
| PCR‐based LOH | — | −0.03 (−0.37 to 0.1) | 0 (−0.19 to 0.12) | 0.01 (−0.35 to 0.13) | 0.05 (−0.05 to 0.16) | 0.02 (−0.5 to 0.14) | −0.12 (−0.74 to 0.09) | 0.05 (−0.1 to 0.16) | 0.05 (−0.34 to 0.16) | −0.08 (−0.82 to 0.11) |
| SNP array | −0.03 (−0.11 to 0.1) | — | 0.04 (−0.17 to 0.37) | 0.03 (−0.31 to 0.37) | 0.09 (−0.03 to 0.42) | 0.04 (−0.46 to 0.38) | −0.08 (−0.7 to 0.29) | 0.09 (−0.07 to 0.42) | 0.08 (−0.29 to 0.42) | −0.04 (−0.79 to 0.32) |
| NGS | −0.06 (−0.13 to −0.02) | −0.03 (−0.16 to 0) | — | 0 (−0.35 to 0.2) | 0.05 (−0.05 to 0.25) | 0.01 (−0.5 to 0.21) | −0.12 (−0.74 to 0.14) | 0.05 (−0.1 to 0.24) | 0.04 (−0.33 to 0.24) | −0.08 (−0.82 to 0.16) |
| CGH | −0.05 (−0.12 to 0.04) | −0.01 (−0.14 to 0.07) | 0.01 (0 to 0.1) | — | 0.05 (−0.06 to 0.4) | 0.01 (−0.49 to 0.35) | −0.11 (−0.74 to 0.26) | 0.05 (−0.1 to 0.4) | 0.04 (−0.32 to 0.4) | −0.07 (−0.82 to 0.29) |
| aCGH | 0.03 (−0.08 to 0.4) | 0.06 (−0.09 to 0.42) | 0.09 (0.01 to 0.45) | 0.08 (−0.03 to 0.44) | — | −0.03 (−0.56 to 0.06) | −0.18 (−0.8 to 0) | 0 (−0.16 to 0.1) | 0 (−0.39 to 0.1) | −0.14 (−0.88 to 0.02) |
| MLPA | 0.25 (−0.02 to 0.75) | 0.28 (0 to 0.77) | 0.32 (0.05 to 0.8) | 0.3 (0.03 to 0.79) | 0.2 (−0.22 to 0.71) | — | −0.11 (−0.74 to 0.39) | 0.03 (−0.11 to 0.55) | 0.03 (−0.32 to 0.55) | −0.08 (−0.83 to 0.41) |
| Real‐time PCR | −0.06 (−0.13 to 0) | −0.02 (−0.16 to 0.03) | 0 (−0.01 to 0.05) | −0.01 (−0.09 to 0.04) | −0.09 (−0.45 to 0) | −0.31 (−0.8 to −0.04) | — | 0.18 (−0.03 to 0.8) | 0.17 (−0.2 to 0.79) | 0.02 (−0.73 to 0.68) |
| CISH | 0.02 (−0.09 to 0.62) | 0.05 (−0.1 to 0.64) | 0.08 (0 to 0.67) | 0.07 (−0.05 to 0.66) | −0.01 (−0.36 to 0.57) | −0.19 (−0.72 to 0.4) | 0.08 (−0.01 to 0.67) | — | 0 (−0.39 to 0.15) | −0.14 (−0.88 to 0.05) |
| MS | −0.05 (−0.13 to 0.24) | −0.02 (−0.15 to 0.26) | 0 (−0.01 to 0.3) | −0.01 (−0.09 to 0.28) | −0.08 (−0.44 to 0.19) | −0.3 (−0.79 to 0.04) | 0 (−0.04 to 0.29) | −0.07 (−0.66 to 0.19) | — | −0.13 (−0.87 to 0.23) |
| NanoString | 0.14 (−0.08 to 0.84) | 0.16 (−0.07 to 0.87) | 0.2 (0 to 0.9) | 0.18 (−0.03 to 0.88) | 0.09 (−0.31 to 0.81) | −0.09 (−0.67 to 0.66) | 0.2 (0 to 0.9) | 0.08 (−0.5 to 0.81) | 0.18 (−0.13 to 0.89) | — |
aCGH: array comparative genomic hybridisation; CGH: comparative genomic hybridisation; CISH: chromogenic in situ hybridisation; FISH: fluorescence in situ hybridisation; LOH: loss of heterozygosity; MLPA: multiplex‐ligation‐dependent probe amplification; MS: mass spectrometry; NGS: next‐generation sequencing; PCR: polymerase chain reaction; SNP: single nucleotide polymorphism.