Variant Type

Description

Variant callers identify multiple types of variants. The type of variant can be reported in a VCF or MAF formatted file.

Overview

Variant type is reported by the GDC MAF file in a column named Variant_Type (column 10)1. The following variant types are reported:

  • SNP: Single nucleotide polymorphism -- a substitution in one nucleotide
  • DNP: Double nucleotide polymorphism -- a substitution in two consecutive nucleotides
  • TNP: Triple nucleotide polymorphism -- a substitution in three consecutive nucleotides
  • ONP: Oligo-nucleotide polymorphism -- a substitution in more than three consecutive nucleotides
  • INS: Insertion -- the addition of nucleotides
  • DEL: Deletion -- the removal of nucleotides

References

1.GDC MAF File Format

  • N/A

Categories: General