作者
Burcu Gurun, Wesley Horton, Dhaarini Murugan, Biqing Zhu, Patrick Leyshock, Sushil Kumar, Katelyn T Byrne, Robert H Vonderheide, Adam A Margolin, Motomi Mori, Paul T Spellman, Lisa M Coussens, Terence P Speed
发表日期
2023/6/26
期刊
BMC genomics
卷号
24
期号
1
页码范围
349
出版商
BioMed Central
简介
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.
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