full_reference_return_model.rds

Seurat object with the integrated reference scRNA-Seq dataset of peripheral blood CD4 T lymphocytes.<br>Please use this object as a reference dataset for CD4map R package (https://github.com/kriukovav/CD4map)<br>The integrated dataset consists of new samples (Chudakov lab, to be published), and published data (Stephenson, E., Reynolds, G., Botting, R.A. <i>et al.</i> Single-cell multi-omics analysis of the immune response in COVID-19. <i>Nat Med</i> <b>27</b>, 904–916 (2021). https://doi.org/10.1038/s41591-021-01329-2).<br>Cell barcodes in samples from Stephenson<i> et al.</i> are consistent with the original paper.<br>Seurat metadata includes the most frequent TCR alpha and TCR beta clonotypes in cells.Metadata columns starting with "sortseq_" contain frequencies of the given clonotypes in repertoires of sorted Th subsets from Kasataskaya <i>et al. </i>(Sofya A Kasatskaya, <i>et al. </i>(2020) <b>Functionally specialized human CD4+</b> <b>T-cell subsets express physicochemically distinct TCRs</b> <i>eLife</i> <b>9</b>:e57063. https://doi.org/10.7554/eLife.57063)<br>This object is used in this analysis pipeline.

包含整合后的外周血CD4 T淋巴细胞参考单细胞RNA测序（single-cell RNA sequencing, scRNA-seq）数据集的Seurat对象。请将该对象用作CD4map R包的参考数据集（链接：https://github.com/kriukovav/CD4map）。本整合数据集包含未发表的新样本（楚达科夫实验室，待发表）以及已发表数据：Stephenson E、Reynolds G、Botting RA等。《新型冠状病毒肺炎免疫应答的单细胞多组学分析》，*Nature Medicine*（*Nat Med*），2021年，第27卷，第904-916页。DOI: 10.1038/s41591-021-01329-2。Stephenson等的研究样本中的细胞条形码与原论文保持一致。Seurat元数据包含细胞中最常见的T细胞受体α（T cell receptor α, TCRα）和T细胞受体β（T cell receptor β, TCRβ）克隆型。以"sortseq_"开头的元数据列，包含了Kasatskaya等（2020年）研究中分选得到的辅助性T细胞亚群免疫组库的指定克隆型频率。相关文献：Sofya A Kasatskaya等，《功能特化的人CD4+ T细胞亚群表达理化特性各异的T细胞受体》，*eLife*，2020年，第9卷:e57063。DOI: 10.7554/eLife.57063。本分析流程已使用该Seurat对象。