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白鸟
(2025-09-04 11:05):
#paper doi: 10.1186/s44342-024-00034-z. Comprehensive Analysis of TCR and BCR Repertoires: Insights into Methodologies, Challenges, and Applications.
这是2025年发表的一篇关于免疫组库分析方法的综述文章。文章思路很清晰，我比较关注免疫组库分析中指标的生物学解读。
文章主要内容：
1.TCR/BCR的多样性，研究意义，免疫组库测序；
2.关键考量因素:(1)初始模板(gDNA,mRNA,cDNA);(2)CDR3/全长测序;(3)bulk测序/单细胞测序;
3.分析流程：数据质量控制、比对和克隆型鉴定；识别配对链;
4.分析工具：整理出常见分析工具列表，重点介绍MIXCR，TRUST4，IMGT/HighV-QUEST，IgBlast，VDJtools；
5.特征指标：提取关键特征指标：理解免疫动力学、评估疾病状态；
(1)多样性指标：香农熵或辛普森指数，免疫反应的强度；
(2)克隆型频率：克隆扩增或收缩模式；特定克隆型的相对丰度；
(3)VDJ基因片段使用:了解免疫系统受体组装；基因使用的偏好性；
(4)CDR3的长度和序列组成;
(5)受体配对分析;
(6)BCR体细胞超突变分析：亲和力成熟；
(7)聚类相似克隆型：识别潜在的抗原驱动扩增；特定免疫应答中富集的特定克隆；
(8)群体分析：克隆重叠共享，共同免疫反应机制；
(9)克隆型距离度量；
(10)TCR/BCR谱系动态追踪：时序动态变化，克隆扩增如何演变，免疫耐受机制发展；
6.应用：免疫学和肿瘤，自身免疫性疾病，免疫治疗
追踪TCR克隆型频率动态；量化疫苗诱导免疫应答；潜力：诊断标记或治疗靶点；
7.研究意义：探究免疫反应、发现治疗靶点及开发精准医疗方案；
Genomics & Informatics,
2025-2-24.
DOI: 10.1186/s44342-024-00034-z
Abstract:
Abstract The diversity of T-cell receptors (TCRs) and B-cell receptors (BCRs) underpins the adaptive immune system’s ability to recognize and respond to a wide array of antigens. Recent advancements in …
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Abstract The diversity of T-cell receptors (TCRs) and B-cell receptors (BCRs) underpins the adaptive immune system’s ability to recognize and respond to a wide array of antigens. Recent advancements in RNA sequencing have expanded its application beyond transcriptomics to include the analysis of immune repertoires, enabling the exploration of TCR and BCR sequences across various physiological and pathological contexts. This review highlights key methodologies and considerations for TCR and BCR repertoire analysis, focusing on the technical aspects of receptor sequence extraction, data processing, and clonotype identification. We compare the use of bulk and single-cell sequencing, discuss computational tools and pipelines, and evaluate the implications of examining specific receptor regions such as CDR3. By integrating immunology, bioinformatics, and clinical research, immune repertoire analysis provides valuable insights into immune function, therapeutic responses, and precision medicine approaches, advancing our understanding of health and disease.
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