Lymphoma Fingerprints in Healthy Individuals Uncovered through Single-Cell DNA Methylation Analyses

This dataset accompanies the manuscript: "Lymphoma Fingerprints in Healthy Individuals Uncovered through Single-Cell DNA Methylation Analyses." It includes raw and processed data from single-cell multiomic profiling of human B cells, integrating single-cell DNA methylation (scDNAm) and surface-marker expression. Contents Raw Data: scDNAm matrices (per sample): raw methylation counts from the scTAM-seq pipeline. Surface-marker data: raw antibody-derived tag (ADT) counts per cell. EM-seq: count matrix per sample. scRNA-seq: Celescope outs folder per sample/run. Processed Data: Final multiomic Seurat object (RDS format), containing three assays: DNAm.counts: raw DNA methylation values DNAm: binarized DNA methylation data ADT: antibody-derived tag counts matrix Seurat object with scRNA-seq data EM-seq final counts matrix: % of methylated reads per CpG per sample. Metadata Integrated in the Seurat object and includes: QC metrics Cell-type annotations B-cell receptor (BCR) annotation and related features. Sample and donor metadata. Samples scTAM-seq: 12 samples derived from 9 healthy donors, from peripheral blood and bone marrow. Two samples (T23 and T49) are undigested controls (no HhaI enzyme) and can be used to assess false-negative rates. scRNAseq: 4 samples of CD19+ B cells from blood. Two different populations (CD5high and CD5low) were sorted from each sample, T48 and T49. EM-seq: 6 samples in total from 3 donors. For each donor, we have an enriched (S1, S3, S5) and a control sample (S2, S4, S6). All donor and sample-specific information is available in the Seurat object metadata and detailed in the Supplementary Material of the published article.本数据集随附于题为《通过单细胞DNA甲基化分析揭示健康个体的淋巴瘤特征指纹》的研究手稿。本数据集包含人类B细胞的单细胞多组学谱分析原始与处理后数据，整合了单细胞DNA甲基化（single-cell DNA methylation, scDNAm）与表面标志物表达信息。 数据内容 原始数据： 1. 单细胞DNA甲基化（scDNAm）矩阵（按样本划分）：来自scTAM-seq流程的原始甲基化计数 2. 表面标志物数据：单细胞水平的抗体衍生标签（antibody-derived tag, ADT）原始计数 3. EM-seq：按样本划分的计数矩阵 4. 单细胞RNA测序（single-cell RNA sequencing, scRNA-seq）：每个样本/测序批次的Celescope输出文件夹 处理后数据： 1. 最终多组学Seurat对象（RDS格式），包含三类检测实验： - DNAm.counts：原始DNA甲基化数值 - DNAm：二值化DNA甲基化数据 - ADT：抗体衍生标签计数矩阵 2. 搭载单细胞RNA测序数据的Seurat对象 3. EM-seq最终计数矩阵：每个样本中每个CpG位点的甲基化读段占比 元数据： 已整合至Seurat对象中，包含以下内容： - 质量控制（quality control, QC）指标 - 细胞类型注释信息 - B细胞受体（B-cell receptor, BCR）注释及相关特征 - 样本与供体元数据 样本信息： 1. scTAM-seq测序样本：来自9名健康供体的12份样本，采集自外周血与骨髓。其中T23与T49两份为未酶切对照样本（未添加HhaI酶），可用于评估假阴性率 2. 单细胞RNA测序样本：4份来自血液的CD19+ B细胞样本。其中T48与T49两份样本分别分选得到CD5高表达与CD5低表达的两个细胞群 3. EM-seq测序样本：共6份样本，来自3名健康供体。每名供体对应一份富集样本（S1、S3、S5）与一份对照样本（S2、S4、S6） 所有供体与样本的专属信息均可在Seurat对象的元数据中查阅，详细内容见已发表论文的补充材料。