The Identify QIAseq DNA Somatic Variants with FLT3 Identification (Illumina) ready-to-use workflow supports the detection of FLT3 complex variants in addition to the somatic variant detection performed by the Identify QIAseq Somatic Variants (Illumina) workflows (see The Identify QIAseq DNA Variants ready-to-use workflows). This workflow is executed the same way as the Identify QIAseq DNA Variant workflows, and generates the same outputs, but with the addition of a variant track containing FLT3 structural variants detected.
FLT3 is a gene situated at position 28577411-2874729 on the minus strand of chromosome 13 (hg19). This gene is known to include complex variability due to long tandem duplications in the range of 20-250 bp. These can be hard to detect as the Low Frequency Variant Detection tool does not detect insertions longer than read length. To detect variants within the FLT3 gene region, a second round of indel detection, using the InDel and Structural Variant Analysis tool, is included in this workflow. Count, coverage and frequency annotations are then added to those results using the Annotate Structural Variants tool (see Annotate Structural Variants).
The detected FLT3 structural variants are reported in a variant track called Structural_variants_in_FLT3, which is saved to the Reports and Data folder. These variants can be exported to VCF format file, along with the other variants detected by the workflow.
The Identify QIAseq DNA Somatic Variants with FLT3 Identification ready-to-use workflow can be found at:
Ready-to-Use Workflows | QIAseq Panel Analysis () | QIAseq Analysis workflows () | Identify QIAseq DNA Somatic Variants with FLT3 Identification (Illumina)
This workflow can also be launched from the Analyze QIAseq Panels guide, described in The Analyze QIAseq Panels guide. It is available under the Targeted DNA tab for the Myeloid Neoplasms Panel (DHS-003Z) as well as the Comprehensive Cancer Panel (DHS-3501Z).