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| Status |
Public on Apr 27, 2022 |
| Title |
Single-cell assay examining chromatin accessibility reveals transcriptional regulatory variation in the proinflammatory milieu of uremia |
| Organism |
Homo sapiens |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
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| Summary |
A single-cell assay for transposase-accessible chromatin with high-throughput sequencing (scATAC-seq) was applied to compare the single-cell chromatin accessibility profiles of peripheral blood mononuclear cells (PBMCs) that were obtained from healthy volunteers and uremia patients. Besides, we further revealed the biological functions and regulatory modes of the uremia-related transcription factors (TFs). We principally identified 8 leukocytic clusters using promoter sums of cell type-specific marker genes. Representative TF motifs related to immune cell phenotype identification were found. The comparison of cells from uremia patients and healthy individuals revealed differential candidate TF motifs driving the uremia-associated transcriptomic signature changes, thereby resulting in variation of multiple immune-inflammatory pathways, virus infection-related pathways, and tumor-associated pathways.Our findings reveal transcriptional regulatory variation in uremia-derived PBMCs from an epigenetic perspective, providing a foundational framework for studies examining proinflammatory mechanisms in uremia and establishing a foundation for future research investigating epigenetic therapy.
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| Overall design |
Single-cell chromatin accessibility (scATAC) profiles of human peripheral blood mononuclear cells in the uremia milieu
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| Contributor(s) |
Wu H, Yu H, Dai Y |
| Citation(s) |
35720370 |
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| Submission date |
Sep 21, 2020 |
| Last update date |
Jun 27, 2022 |
| Contact name |
Hongwei Wu |
| E-mail(s) |
wu5786161@126.com
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| Organization name |
Jinan University
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| Street address |
Jinan University, No.601, West Huangpu Avenue ,Guangzhou, Guangdong, China
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| City |
Guangzhou |
| ZIP/Postal code |
510632 |
| Country |
China |
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| Platforms (1) |
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| Samples (2) |
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| Relations |
| BioProject |
PRJNA664740 |
| SRA |
SRP284237 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE158280_RAW.tar |
47.8 Mb |
(http)(custom) |
TAR (of BED, MTX, TSV) |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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