|
| Status |
Public on Mar 01, 2022 |
| Title |
Control Organoid scRNA Sequencing |
| Sample type |
SRA |
| |
|
| Source name |
Salivary_Gland_Stroma
|
| Organism |
Mus musculus |
| Characteristics |
strain: CD-1
tissue: Salivary Gland
age: Embryonic_day_16+7
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Capture 5023 cells for control and 10107 cells for FGF2 organoids using the 10x Chromium System
Libraries were prepared according to 10x Genomics Chrmoium Next GEM Single Cell 3' GEM Kit instructions (Cat# 1000130). Briefly, single cells were emulsified in 10X Chromium system and each cell's RNA was barcoded. cDNA was amplified, fragmented and indexed primers 10-13 cycles and library fragments of ~400 bp. The cDNA was flowed onto a Illumina flow cell for cluster generation. Libraries were sequenced on 4 lanes of a Illumina NextSeq500 for high output PE75 v2.5 following the manufacturer's protocols.
scRNA-Seq / Drop-Seq
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Description |
Sample_1_noFGF2
|
| Data processing |
Clean reads were analyzed with mouse reference genome using the Cell Ranger v4.0
Genome_build: mm10-2020-A
Supplementary_files_format_and_content: tsv and mtx files containing cell barcodes and gene count matrix
|
| |
|
| Submission date |
Jan 04, 2022 |
| Last update date |
Mar 02, 2022 |
| Contact name |
Nicholas Moskwa |
| E-mail(s) |
nmoskwa@albany.edu
|
| Organization name |
University at Albany
|
| Street address |
1400 Washington Avenue
|
| City |
Albany |
| State/province |
New York |
| ZIP/Postal code |
12222 |
| Country |
USA |
| |
|
| Platform ID |
GPL19057 |
| Series (2) |
| GSE181430 |
Single-cell sequencing reveals PDFGRα+ stromal cell subpopulations that promote proacinar differentiation in embryonic salivary gland organoids |
| GSE193041 |
Single cell RNA sequencing from organoid stroma derived from E16 salivary glands. |
|
| Relations |
| BioSample |
SAMN24614319 |
| SRA |
SRX13602752 |
