观察到的T细胞受体空间数据库使配对链谱采矿,连贯性分析和语言建模成为可能
Matthew I J Raybould1, Alexander Greenshields-Watson1, Parth Agarwal1
1Oxford Protein Informatics Group, Department of Statistics, University of Oxford, 24-29 St Giles', OX1 3LB Oxford, UK.
观察到的TCR空间 (OTS) 数据库现在提供了数百万对T细胞受体 (TCR) 序列,使得对TCR配对偏差和公共TCR的新见解成为可能. 这个资源促进了先进的TCR序列分析和建模.
科学领域:
- 免疫学 免疫学 免疫学
- 生物信息学是一种生物信息学.
- 计算生物学 计算生物学
背景情况:
- T细胞激活依赖于T细胞受体 (TCRs),这些受体是识别抗原片段的异构体.
- 现有的TCR序列存储库主要收集单链数据,忽视对链信息.
- 这种数据缺口限制了对TCR结构功能关系的全面分析.
研究的目的:
- 建立一个全长,配对链的TCR序列的集中数据库.
- 为了研究TCR配对偏差,并识别公共TCR序列.
- 为配对的TCR序列分析开发一个计算模型.
主要方法:
- 通过处理和注释来自不同研究的配对TCR序列,创建观察TCR空间 (OTS) 数据库.
- 对535万个冗余 (1.63万个非冗余) 人类TCR序列的分析.
- 开发一种配对链TCR语言模型,用于生成序列嵌入和残留填充.
主要成果:
- 该OTS数据库包含大量的配对TCR序列集合,方便进行新的分析.
- 识别显著的TCR配对偏差和常见的公共TCR序列.
- 与抗体相比,TCRs中明显的链条连贯性模式的证明.
- 发布一个功能配对链TCR语言模型.
结论:
- 观察到的TCR空间数据库解决了TCR序列数据可用性的关键差距.
- OTS为免疫学研究提供了宝贵的资源,使得人们能够更深入地了解TCR曲目.
- 开发的语言模型为分析和预测TCR交互提供了新的计算工具.
更多相关视频
09:53Using X-ray Crystallography, Biophysics, and Functional Assays to Determine the Mechanisms Governing T-cell Receptor Recognition of Cancer Antigens
Published on: February 6, 2017
14:14Simultaneous Quantification of T-Cell Receptor Excision Circles TRECs and K-Deleting Recombination Excision Circles KRECs by Real-time PCR
Published on: December 6, 2014
相关概念视频
RNA-seq
Before the discovery of RNA-seq, microarray-based methods and Sanger sequencing were used for transcriptome analysis. However, while...
Diversity of Antigen Receptors
Before encountering any antigen, lymphocytes express these receptors. On B cells, the antigen receptor is a membrane-bound antibody molecule called BCR; on T cells, it is a T cell receptor or TCR. B and T cell receptors are composed of two...
T Cell Activation and Clonal Selection
Naive T cells that have not yet encountered an antigen express two primary CD...
T Cell Types and Functions
Th1 cells stimulate dendritic cells to express necessary co-stimulatory molecules on their surfaces for...
Ligand Binding and Linkage
Ribosome Profiling
Applications of ribosome profiling
Ribosome profiling has many applications, including in vivo monitoring of translation inside a particular organ or tissue type and quantifying new protein synthesis levels.
The technique...
