|
| Status |
Public on Jan 25, 2024 |
| Title |
LAN207A1 |
| Sample type |
SRA |
| |
|
| Source name |
Heart
|
| Organism |
Mus musculus |
| Characteristics |
developmental stage: E13.5
genotype: WT
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Hearts were dissected and dissociated into single cell suspensions using the Neonatal Heart Dissociation kit (Miltenyi Biotech) and gentleMACS Octo Dissociator (Miltenyi Biotech) with gentle MACS C tubes and were subsequently methanol-fixed and stored at -80C.
libraries were prepared with the 10x Chromium 3’ mRNA-Seq kit version 2. The cells were QC’d with trypan blue viability dye and quantified using the EVE automated cell counter. Approximately 2000 – 3000 cells were loaded onto the 10x and prepared according to manufacturer’s instructions.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 4000 |
| |
|
| Description |
control
|
| Data processing |
Cellranger-2.1.1 was used to deconvolve, align and quantify the per-cell transcriptomes.
Reads were aligned to mouse mm10-1.2.0 (obtained from 10x genomics)
Genome_build: mouse mm10 (mm10-1.2.0 from 10x Genomics)
Supplementary_files_format_and_content: tar file containing 10x counts matrix, features and barcode data from filtered cell ranger outputs
|
| |
|
| Submission date |
Feb 09, 2022 |
| Last update date |
Jan 25, 2024 |
| Contact name |
Victor Tybulewicz |
| E-mail(s) |
Victor.T@crick.ac.uk
|
| Organization name |
Francis Crick Institute
|
| Street address |
1 Midland Road
|
| City |
London |
| ZIP/Postal code |
NW1 1AT |
| Country |
United Kingdom |
| |
|
| Platform ID |
GPL21103 |
| Series (2) |
| GSE196446 |
Dyrk1a dosage effects on the transcriptome of embryonic hearts from the Dp1Tyb mouse model of Down syndrome using scRNAseq |
| GSE196447 |
Down Syndrome |
|
| Relations |
| BioSample |
SAMN25817281 |
| SRA |
SRX14121473 |
