Targeted Capture of STR Loci by smMIPs
MIPSTR is a method for multiplex genotyping of germline and somatic short tandem repeat (STR) variation across many individuals (Carlson et al., 2015). This method is a variation of the smMIP (Hiatt et al., 2013) approach and uses a novel mapping strategy.
The method uses a smMIP with a common backbone for a PCR primer, sequencing adapters, 12 bp degenerate tag, and targeting arms with locus-specific and STR-flanking sequences. Capture across genetically diverse individuals identifies germline STR variation. The use of degenerate tags identifies technical variation, and STR variation across tag-defined read groups is considered somatic variation.
- Capable of distinguishing technical error from somatic STR mutations
- Requires high-quality reference genome
Illumina Library prep and Array Kit Selector
Estivill X. Genetic variation and alternative splicing. Nat Biotechnol. 2015;33:357-359
Carlson K. D., Sudmant P. H., Press M. O., Eichler E. E., Shendure J., et al. MIPSTR: a method for multiplex genotyping of germline and somatic STR variation across many individuals. Genome Res. 2015;25:750-761