A human cell atlas of fetal cis-regulatory elements by single-cell multi-omics analysis
| Title | A human cell atlas of fetal cis-regulatory elements by single-cell multi-omics analysis |
|---|---|
| Description | We performed parallel profiling of gene expression and chromatin accessibility to 28 human fetal tissue samples representing 14 organs in first trimester. Collectively, we have generated 415,793 single-cell profiles. By integration analysis of transcriptome and chromatin accessibility, we identified 225 distinct cell types and 848,475 accessible cis-regulatory elements (aCREs). We further linked regulatory elements to their putative target genes and uncovered 94 genes regulated by both enhancers and silencers in a cell-type-specific manner. Our analysis revealed a significant proportion of distal cis elements shows both open chromatin signal and transcription initiation activity of non-coding transcript. The landscape of fetal cis-regulatory elements facilitates the interpretation the genetic variant of complex disease and infer the cell of origin for multiple cancer. |
| Organism | Homo sapiens |
| Data Type | - |
| Data Accessibility | Open-access |
| BioProject | PRJCA004704 |
| Release Date | 2022-11-10 |
| Submitter | Jiang Lan (jiangl@big.ac.cn) |
| Organization | Beijing Institute of Genomics, Chinese Academy of Sciences |
| Submission Date | 2021-08-20 |
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| File ID | File Title | Number/Samples | File Type | File Size | File Suffix | Download Times | Download |
|---|---|---|---|---|---|---|---|
| OMIX536-20-01 | File_S1_Metadata.RNA_Cells | 1 | Transcriptomic | 6.4 MB | zip | 8 | |
| OMIX536-99-02 | File_S2_Metadata.ATAC_Cells | 1 | others | 3.4 MB | zip | 64 | |
| OMIX536-20-03 | File_S3_Matrix.Gene_Raw_Counts_of_Cells | 1 | Transcriptomic | 903.3 MB | zip | 0 | |
| OMIX536-99-04 | File_S4_Matrix.Peak_Counts_of_Cells | 1 | others | 4.2 GB | zip | 0 | |
| OMIX536-99-05 | File_S5_Matrix.Normalized_Peak_Counts_of_CellTypes | 1 | others | 325.0 MB | zip | 0 | |
| OMIX536-99-06 | File_S6_Matrix.Binary_Peak_Counts_of_CellTypes | 1 | others | 20.9 MB | zip | 8 | |
| OMIX536-20-07 | File_S7_RDS_Cells_Genes_Seurat | 1 | Transcriptomic | 16.2 GB | zip | 8 | |
| OMIX536-20-08 | File_S8_RDS_CellTypes_Genes_Seurat | 1 | Transcriptomic | 161.2 MB | zip | 0 | |
| OMIX536-99-09 | File_S9_RDS_Cells_GeneScore_ArchR | 1 | others | 6.1 GB | zip | 0 | |
| OMIX536-20-10 | File_S10_Matrix.tCRE_transcription_intensity_of_CellTypes | 1 | Transcriptomic | 13.3 MB | zip | 0 |