Short-tandem repeat (STR) is used to establish the provenance of the patient-derived xenograft models and to allow users at other institutions to use a common, established technique to verify the identity of PDX models.
In the Mayo Clinic Brain Tumor Patient-Derived Xenograft National Resource, short-tandem repeat was performed on genomic DNA from a single biological sample for each PDX model.
The same DNA that was submitted for whole-exome sequencing (WES) analysis was submitted for short-tandem repeat for almost all samples.
At the time STR was performed, the same DNA sample was processed for a single nucleotide polymorphism (SNP) detection panel (SIDV) that is unique to Mayo Clinic but that is run on all WES analyses. In this way, the STR analysis can be linked directly to the WES data via the SIDV analysis.
When available, short-tandem repeat also was run on either archived patient tumor tissue or on archived patient germline DNA to confirm the identity of the patient from whom a specific PDX model was derived.