生长方案:	-
处理方案:	The Cell Ranger Software Suite (Version 3.1.0) was used to perform sample de-multiplexing, barcode processing and single-cell 5’ UMI counting with human GRCh38 as the reference genome. Specifically, splicing-aware aligner STAR was used in FASTQs alignment. Cell barcodes were then determined based on distribution of UMI count automatically. Finally, gene-barcode matrix of all 6 donors and 8 previously reported healthy control was integrated with Seurat v3 to remove batch effect across different donors. Following criteria were then applied to each cell, i.e., gene number between 200 and 6000, UMI count above 1000 and mitochondrial gene percentage below 0.1.The filtered gene-barcode matrix was normalized with LogNormalize methods in Seurat and analyzed by principal component analysis (PCA) using the top 2, 000 most variable genes. Then Uniform Manifold Approximation and Projection (UMAP) was performed on the top 50 principal components for visualizing the cells. Meanwhile, graph-based clustering was performed on the PCA-reduced data for clustering analysis with Seurat v3.MAST in Seurat v3 was used to perform differential analysis. For each cluster, differentially-expressed genes (DEGs) were generated relative to all of the other cells.The TCR sequences for each single T cell were assembled by Cell Ranger vdj pipeline (v3.1.0), leading to the identification of CDR3 sequence and the rearranged TCR gene. Cells with both TCR alpha and beta chains were kept and cells with only one TCR chain were discarded.Genome_build: GRCh38 + COVID(MN908947).Supplementary_files_format_and_content: h5, raw count matrix generated by Cell Ranger count; csv, tcr contig annotations generated by Cell Ranger vdj
提取方案:	Total 11 µl of single cell suspension and 40 µl barcoded Gel Beads were loaded to Chromium Chip A to generate single-cell gel bead-in-emulsion (GEM). The poly-adenylated transcripts were reverse-transcribed later. The single-cell capturing and downstream library constructions were performed using the Chromium Single Cell 5’ library preparation kit according to the manufacturer’s protocol (10x Genomics). Full-length cDNA along with cell-barcode identifiers were PCR-amplified and sequencing libraries were prepared and normalized to 3 nM.
建库方案:	-

分子类型:	poly(A)+ RNA
库的片段类型:	PAIRED
库的链类型:	Forward
测序平台:	BGISEQ
测序仪型号:	BGISEQ-500
链特异性:	Specific

数据来源	GEN样本编号	GEN数据集编号	系列编号	项目编号	样本编号	样本名称	生物样本编号	样本访问号	实验访问号	释放时间	提交时间	最后更新时间	物种	种族	族裔	年龄	年龄单位	性别	来源名称	组织	细胞类型	细胞亚型	细胞系	疾病	疾病状态	发育阶段	突变/变异	表型	Condition Detail	生长方案	处理方案	提取方案	建库方案	分子类型	库的片段类型	链特异性	库的链类型	加标（Spike-In）	测序方法	测序平台	测序仪型号	细胞数	测序片段数	碱基数	平均测序片段长度_1	平均测序片段长度_2	唯一比对率	多重比对率	覆盖度