SatTCR: a pipeline for performing saturation analysis of the T cell receptor repertoire and a case study of a healthy canine.

ABSTRACT:

Motivation

Profiling the T cell receptor (TCR) repertoire using next-generation sequencing (NGS) to quantify adaptive immune responses has become common in human and animal research. Companion dogs with spontaneous tumors have similarities with humans who have cancer. T cells undergo clonal expansion when they recognize specific antigens via surface TCRs. TCR counts from NGS data provide a way to quantify T cell response to vaccines, cancer, or infectious diseases for preclinical and clinical health studies. One complication is that the power and accuracy of TCR experiments depend substantially on the TCR sequencing depth, therefore it is important to determine the optimal read depth of an experiment to verify whether a subject's repertoire is correctly represented.

Results

SUBMITTER: Welch Schwartz R 

PROVIDER: S-EPMC12743510 | biostudies-literature | 2026 Jun

REPOSITORIES: biostudies-literature