Abstract
Sequencing of the T cell receptor (TCR) repertoire is a powerful tool for deeper study of immune response, but the unique structure of this type of data makes its meaningful quantification challenging. We introduce a new method, the Gamma-GPD spliced threshold model, to address this difficulty. This biologically interpretable model captures the distribution of the TCR repertoire, demonstrates stability across varying sequencing depths, and permits comparative analysis across any number of sampled individuals. We apply our method to several datasets and obtain insights regarding the differentiating features in the T cell receptor repertoire among sampled individuals across conditions. We have implemented our method in the open-source R package powerTCR.
Highlights
Recent advances in high-throughput sequencing of the T cell receptor (TCR) repertoire provide a new, detailed characterization of the immune system
In particular, we study T cells through T cell receptor sequencing, as T cells play a vital role in immune response
One important feature of T cell receptor sequencing data is the frequencies of each receptor in a given sample
Summary
Recent advances in high-throughput sequencing of the T cell receptor (TCR) repertoire provide a new, detailed characterization of the immune system. Modeling differences between T cell receptors sequenced from different individuals. Our method is implemented in the R package powerTCR, freely available on BioConductor Our method is implemented in the R package powerTCR, freely available on BioConductor (https://bioconductor. org/packages/devel/bioc/html/powerTCR.html) under an Artistic-2.0 license
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