Table 5 Criteria for the confirmation of CMMRD.

From: ERN GENTURIS guidelines on constitutional mismatch repair deficiency diagnosis, genetic counselling, surveillance, quality of life, and clinical management

Genotype

MMR gene genetic testing reason

Germline MMR gene variants identified (if two variants are identified, they must be confirmed to be in trans)

C4CMMRD criteria for cancer patient fulfilled (Rec. 1)

Cancer < 18 years with paediatric high TMB (Rec. 2)

Cancer with MMR protein expression loss in neoplastic and non-neoplastic cells including tumour infiltrating lymphocytes and/or endothelial cells (Rec. 3)

Cancer < 18 years with heterozygous germline MMR gene (L)PV (Rec. 4)

C4CMMRD criteria for children without cancer suspected to have NF1/Legius syndrome and a negative NF1/SPRED1 mutation analysis (Rec. 6)

Incidental finding in WES or WGS performed for other reasons in a patient without cancer

PV/PV

PV/LPV

√(PPAP-)

√(AT + )

LPV/LPV

√(PPAP-)

√(AT + )

√(AT + )

√(AT + )

√(AT + )

(L)PV/VUS

√(AT + )

√(AT + )

√(AT + )

√(AT + )

√(AT + )

√(AT + )

VUS/VUS

√(AT + )

√(AT + )

√(AT + )

NA

√(AT + )

NA

(L)PV/X

√(AT + ; mRNA + )

√(AT + ; mRNA + )

√(AT + ; mRNA + )

√(AT + ; mRNA + )

√(AT + ; mRNA + )

NA

VUS/X

√(AT + ; mRNA + )

√(AT + ; mRNA + )

√(AT + ; mRNA + )

NA

√(AT + ; mRNA + )

NA

X/X

√(AT + ; mRNA + )

√(AT + ; mRNA + )

√(AT + ; mRNA + )

NA

√(AT + ; mRNA + )

NA

  1. C4CMMRD Care for CMMRD, MMR mismatch repair, TMB Tumour mutation burden, PV Pathogenic variant, LPV Likely pathogenic variant, (L)PV Likely pathogenic or pathogenic variant, VUS variant of unknown significance, WES Whole exome sequencing, WGS Whole genome sequencing; alleles are separated by / and X indicates one allele without an identifiable (L)PV or VUS.
  2. NA not applicable.
  3. √ = CMMRD confirmed without further ancillary test or transcript analysis.
  4. √(PPAP-) = CMMRD confirmed without further ancillary test if POLE/POLD1 germline mutation excluded (i.e., polymerase proofreading associated polyposis negative: PPAP-).
  5. √(AT + ) = CMMRD confirmed if validated ancillary test positive for CMMRD (AT + ).
  6. √(AT + ; mRNA + ) = CMMRD confirmed if validated ancillary test positive for CMMRD (AT + ) and evidence by transcript analysis for (a) faulty splicing (not explained by the identified variant) or (b) reduced expression of the wild-type allele(s) (mRNA + ).