Table 1 Comparison of different techniques used for detecting actionable alterations in molecular pathology
|  | SNV + Indel | CNV | SV | Tumor burden quantification (TMB) | MSI/MMR assessment | Hotspot (HS) alteration versus Whole gene evaluation (WG) | Morphology Correlation | Quantification of the finding | Turn Around time (estimated days) |
|---|---|---|---|---|---|---|---|---|---|
In situ hybridization (ISH) | ✖⃞ | ✔⃞ | ✔⃞ | ✖⃞ | ✖⃞ | HS | ✔⃞ | ✔⃞ | 1d |
Immunohistochemistry (IHC) | ✔⃞a | ✔⃞a | ✔⃞a | ✖⃞ | ✔⃞ | HSa | ✔⃞ | ✔⃞ | 1d |
Conventional PCR | ✔⃞ | ✖⃞ | ✖⃞ | ✖⃞ | ✔⃞b | HS | ✖⃞ | ✖⃞ | 2d |
Real Time PCR | ✔⃞ | ✔⃞ | ✔⃞ | ✖⃞ | ✔⃞ | HS | ✖⃞ | ✔⃞ | 2d |
Digital PCR | ✔⃞ | ✔⃞ | ✔⃞ | ✖⃞ | ✔⃞ | HS | ✖⃞ | ✔⃞ | 2d |
Sanger | ✔⃞ | ✖⃞ | ✔⃞ | ✖⃞ | ✔⃞b | WG | ✖⃞ | ✖⃞ | 3d |
Pyrosequencing | ✔⃞ | ✖⃞ | ✖⃞ | ✖⃞ | ✖⃞ | HS | ✖⃞ | ✔⃞ | 3d |
Next Generation Sequencing (NGS) | ✔⃞ | ✔⃞ | ✔⃞ | ✔⃞ | ✔⃞ | WG | ✖⃞ | ✔⃞ | 5-10d |