BASIC: BCR assembly from single cells.
BASIC: BCR assembly from single cells.
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DOI：
10.1093/bioinformatics/btw631
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发表时间：
2017-02-01
期刊：
影响因子：
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通讯作者：
Khan AA
中科院分区：
文献类型：
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作者：
Canzar S;Neu KE;Tang Q;Wilson PC;Khan AA
B细胞受体使单个B细胞能够识别多种抗原，包括细菌和病毒蛋白质。虽然RNA测序（RNA - seq）技术的进步使得能够对单个细胞中的转录本表达进行高通量分析，但从B细胞的单细胞RNA测序（scRNA - seq）中组装全长重链和轻链序列这一独特任务在很大程度上尚未得到研究。
我们开发了一种新的软件工具BASIC，它使研究人员能够使用scRNA - seq在单细胞分辨率下组装BCR序列。为了证明我们软件的实用性，我们对近200个人类单个B细胞进行了scRNA - seq，组装了全长重链和轻链，并通过基于单细胞引物的巢式PCR和桑格测序对这些结果进行了实验验证。
http://ttic.uchicago.edu/∼aakhan/BASIC
补充数据可在《生物信息学》在线获取。
The B-cell receptor enables individual B cells to identify diverse antigens, including bacterial and viral proteins. While advances in RNA-sequencing (RNA-seq) have enabled high throughput profiling of transcript expression in single cells, the unique task of assembling the full-length heavy and light chain sequences from single cell RNA-seq (scRNA-seq) in B cells has been largely unstudied. We developed a new software tool, BASIC, which allows investigators to use scRNA-seq for assembling BCR sequences at single-cell resolution. To demonstrate the utility of our software, we subjected nearly 200 single human B cells to scRNA-seq, assembled the full-length heavy and the light chains, and experimentally confirmed these results by using single-cell primer-based nested PCRs and Sanger sequencing. http://ttic.uchicago.edu/∼aakhan/BASIC Supplementary data are available at Bioinformatics online.