A Framework for Annotation of Antigen Specificities in High-Throughput T-Cell Repertoire Sequencing Studies.

ABSTRACT: Recently developed molecular methods allow large-scale profiling of T-cell receptor (TCR) sequences that encode for antigen specificity and immunological memory of these cells. However, it is well-known that the even unperturbed TCR repertoire structure is extremely complex due to the high diversity of TCR rearrangements and multiple biases imprinted by VDJ rearrangement process. The latter gives rise to the phenomenon of "public" TCR clonotypes that can be shared across multiple individuals and non-trivial structure of the TCR similarity network. Here, we outline a framework for TCR sequencing data analysis that can control for these biases in order to infer TCRs that are involved in response to antigens of interest. We apply two previously published methods, ALICE and TCRNET, to detect g

SUBMITTER: Pogorelyy MV 

PROVIDER: S-EPMC6775185 | biostudies-literature | 2019

REPOSITORIES: biostudies-literature