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Investigation of epigenetic and transcriptomic features of human B cell development

ABSTRACT: This dataset was generated as part of a multi-omics study aimed at investigating human B cells development. The study included bulk and single cell epigenetic methodologies coupled with single cell transcriptomics and proteomics. Data included in this submission were generated using the 10x Genomics single-cell RNA, V(D)J Sequencing and Protein feature barcoding method on sorted B cells from adult human blood. The study demonstrated the emergence of epigenetic differences in B cell subsets at early stages of development that drive divergent developmental paths. Epigenetic features established at early stages are retained in distinct mature cell subpopulations, where they are coupled with transcription of accessible genomic regions. Identified features are retained after cell migration in secondary lymphoid organs.

ORGANISM(S): Homo sapiens

PROVIDER: GSE321688 | GEO | 2026/05/14

REPOSITORIES: GEO

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Project description:Probing epigenetic features on long molecules of DNA has tremendous potential to advance our understanding of the phased epigenome. In this study, we evaluate CpG methylation and chromatin accessibility simultaneously on long strands of DNA using GpC methyltransferase to exogenously label open chromatin, coupled with nanopore sequencing technology. We performed nanopore sequencing of Nucleosome Occupancy and Methylome (nanoNOMe) on four human cell lines (GM12878, MCF-10A, MCF-7, MDA-MB-231), and demonstrate the ability to directly measure methylation and chromatin accessibility in genomic features such as structural variations and repetitive elements. The long single-molecule resolution allows footprinting of protein and nucleosome binding and determining the combinatorial promoter epigenetic state on individual molecules. Long-read sequencing makes it possible to robustly assign reads to haplotypes, enabling allele-specific epigenetic analysis across the genome. We use existing SNV data on GM12878 to present the first fully phased human Probing epigenetic features on long molecules of DNA has tremendous potential to advance our understanding of the phased epigenome. We evaluate CpG methylation and chromatin accessibility simultaneously on long strands of DNA using GpC methyltransferase to exogenously label open chromatin, coupled with nanopore sequencing technology. We performed nanopore sequencing of Nucleosome Occupancy and Methylome (nanoNOMe) on four human cell lines (GM12878, MCF-10A, MCF-7, MDA-MB-231), and demonstrate the ability to directly measure methylation and chromatin accessibility in genomic features such as structural variations and repetitive elements. The long single-molecule resolution allows footprinting of protein and nucleosome binding and determining the combinatorial promoter epigenetic state on individual molecules. Long-read sequencing makes it possible to robustly assign reads to haplotypes, enabling allele-specific epigenetic analysis across the genome. We use existing SNV data on GM12878 to present the first fully phased human epigenome, consisting of chromosome-level allele-specific profiles of CpG methylation and chromatin accessibility.mosome-level allele-specific profiles of CpG methylation and chromatin accessibility.

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Investigation of epigenetic and transcriptomic features of human B cell development

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