生物
计算生物学
转录组
RNA序列
单细胞测序
表型
遗传学
谱系(遗传)
B细胞受体
基因
B细胞
抗体
基因表达
外显子组测序
作者
Ida Lindeman,Guy Emerton,Lira Mamanova,Omri Snir,Krzysztof Polański,Shuo–Wang Qiao,Ludvig M. Sollid,Sarah A. Teichmann,Michael J. T. Stubbington
出处
期刊:Nature Methods
[Springer Nature]
日期:2018-07-31
卷期号:15 (8): 563-565
被引量:84
标识
DOI:10.1038/s41592-018-0082-3
摘要
Reconstruction of antigen receptor sequences from single-cell RNA-sequencing (scRNA-seq) data allows the linking of antigen receptor usage to the full transcriptomic identity of individual B lymphocytes, without having to perform additional targeted repertoire sequencing (Rep-seq). Here we report BraCeR (freely available at https://github.com/teichlab/bracer/), an extension of TraCeR, for reconstruction of paired full-length B-cell receptor sequences and inference of clonality from scRNA-seq data. With an easy-to-use command-line interface, BraCeR provides a complete pipeline for clonal inference and lineage tracing of B cells. Raw scRNA-seq reads can be processed all the way to clonal networks and lineage trees, facilitating linkage of transcriptomic phenotype to the evolution of immunoglobulin sequences.
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