部落:B细胞克隆系的树推理
Leah L Weber1, Derek Reiman2, Mrinmoy S Roddur1
1Department of Computer Science, University of Illinois at Urbana-Champaign, IL 61801, USA.
bioRxiv : the preprint server for biology
|December 11, 2023
概括
我们开发了TRIBAL,一种使用单细胞RNA测序推断B细胞进化史的新方法. TRIBAL通过整合B细胞受体序列和同型数据来改善血统追踪,以更好地了解免疫反应.
科学领域:
- 免疫学 免疫学 免疫学
- 计算生物学 计算生物学
- 基因组学就是基因组学.
背景情况:
- B细胞对于适应性免疫至关重要,产生抗体.
- 单细胞RNA测序 (scRNA-seq) 可实现B细胞受体 (BCR) 和基因表达造型.
- 了解免疫反应期间的B细胞进化是具有挑战性的.
研究的目的:
- 介绍TRIBAL,一种用于从scRNA-seq数据推断克隆B细胞进化史的新方法.
- 通过将同型数据与BCR序列相结合,提高族系学准确性.
- 了解B细胞类切换动态.
主要方法:
- 在类切换重组过程中,TRIBAL共同模拟BCR体质突变和同型转换.
- 利用同型数据来减少血统推断中的遗传学不确定性.
- 降低同型转换概率,以区分直接和顺序切换.
主要成果:
- 与竞争方法相比,TRIBAL可以推断出比竞争方法更准确的B细胞血统树和祖先序列.
- 模拟表明TRIBAL可以区分直接和顺序同型切换.
- 现实世界的数据分析证实了TRIBAL总结了亲和力成熟的生物趋势.
结论:
- TRIBAL提供了一种强大的方法来重建B细胞的进化轨迹.
- 该方法提供了更准确的血统树和对类切换的洞察力.
- 在疫苗反应,疾病研究和治疗性抗体发现方面,TRIBAL具有潜在的应用.
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