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| Status |
Public on Aug 10, 2023 |
| Title |
Single-cell-level gene expression and chromatin accessibility profiles of cells isolated from Drosophila embryonic gonads |
| Organism |
Drosophila melanogaster |
| Experiment type |
Expression profiling by high throughput sequencing
Genome binding/occupancy profiling by high throughput sequencing
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| Summary |
We use scRNA-seq and scATAC-seq to investigate the development of germ cells and somatic gonadal precursors during embryogenesis.
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| Overall design |
For the scRNA part, the vas-GFP cells were collected from 8-12 and 12-20 hr embryos using Fluorescence-activated cell sorting (FACS) and then pooled together to generate a scRNA sequencing library. For the scATAC part, vas-GFP nuclei were isolated from 0-4, 4-8, 8-12, 12-16 and 16-20 hr embryos using FACS and then pooled together to generate both ATAC and snRNA sequencing libraries. To get an overview of the expression profiles of germ cells from the beginning of embryogenesis, we included our previous 0-8 hr scRNA-seq data (SRX8341666) here.
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| Contributor(s) |
Li YR, Yang SY |
| Citation(s) |
38991729 |
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| Submission date |
Aug 03, 2023 |
| Last update date |
Aug 08, 2024 |
| Contact name |
Shu Yuan Yang |
| E-mail(s) |
yangsy@mail.cgu.edu.tw
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| Organization name |
Chang Gung University
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| Department |
Biomedical science
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| Street address |
Wenhua 1st Rd, No. 259
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| City |
Kweishan, Taoyuan |
| ZIP/Postal code |
33302 |
| Country |
Taiwan |
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| Platforms (1) |
| GPL25244 |
Illumina NovaSeq 6000 (Drosophila melanogaster) |
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| Samples (4)
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| Relations |
| BioProject |
PRJNA1001971 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE240043_RAW.tar |
498.0 Mb |
(http)(custom) |
TAR (of CSV, MTX, TBI, TSV) |
| GSE240043_scRNA_0-20hr_aggr_barcodes.tsv.gz |
80.8 Kb |
(ftp)(http) |
TSV |
| GSE240043_scRNA_0-20hr_aggr_features.tsv.gz |
111.2 Kb |
(ftp)(http) |
TSV |
| GSE240043_scRNA_0-20hr_aggr_matrix.mtx.gz |
118.1 Mb |
(ftp)(http) |
MTX |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
| Processed data are available on Series record |
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