. Author manuscript; available in PMC: 2021 Aug 13.

Published in final edited form as: J Thorac Oncol. 2020 Jun 6;15(9):1409–1424. doi: 10.1016/j.jtho.2020.05.019

Table 2.

Examples of Targeted DNA-Based Assays That Generate a TMB Score

Assay	Total size/Coding (Mb)	Aberration in Algorithm^a	Germline Filtering	Cancer Gene Bias Correction	FFPE Error Correction	Targeting	Reference
MSK-IMPACT	1.5/1.14	SNV (NS), indels	Paired normal	No	Pool of normals	Hybrid capture	15
FoundationOne CDx	2.2/0.8	SNV (NS, S), indels	Database, SGZ	Yes	Bioinformatic	Hybrid capture	55
Illumina TSO500	1.9/1.3	SNV (NS, S), indels	Database, SGZ	Yes	UMI	Hybrid capture	59
Thermo Fisher Oncomine	1.7/1.2	SNV (NS)	Database	No	UDG; deamination metric	Amplicon	56
Qiagen QIAseq TMB	1.3/1.3	SNV (NS), indels	Database	No	UMI	Amplicon	Personal communication, Raed Samara, Qiagen
NEO New Oncology, NEOplus ROU	2.5/1.2	SNV (NS), indels	Database	NA	Bioinformatic	Hybrid capture	76
Caris SureSelect XT	1.6/1.4	SNV (NS), indels	Database	No	Bioinformatic	Hybrid capture	57

FFPE, formalin-fixed paraffin-embedded; indel, insertion-deletion; MSK-IMPACT, Memorial Sloan Kettering–Integrated Mutation Profiling of Actionable Cancer Targets; NA, not available; NS, nonsynonymous; S, synonymous; SGZ, somatic-germline zygosity algorithm; SNV, single nucleotide variants; TMB, tumor mutational burden; UDG, uracil-DNA glycosylase; UMI unique molecular identifier.

Aberrations included in the bioinformatic pipeline to estimate TMB. All assays report TMB according to the definition—that is, NS-TMB per Mb correlated to WGS.