학술논문
An open protocol for modeling T Cell Clonotype repertoires using TCRβ CDR3 sequences.
Document Type
Article
Author
Source
Subject
*NUCLEOTIDE sequencing
*T cell receptors
*T cells
*
*
Language
ISSN
1471-2164
Abstract
T cell receptor repertoires can be profiled using next generation sequencing (NGS) to measure and monitor adaptive dynamical changes in response to disease and other perturbations. Genomic DNA-based bulk sequencing is cost-effective but necessitates multiplex target amplification using multiple primer pairs with highly variable amplification efficiencies. Here, we utilize an equimolar primer mixture and propose a single statistical normalization step that efficiently corrects for amplification bias post sequencing. Using samples analyzed by both our open protocol and a commercial solution, we show high concordance between bulk clonality metrics. This approach is an inexpensive and open-source alternative to commercial solutions. [ABSTRACT FROM AUTHOR]