|
| Status |
Public on Jun 10, 2020 |
| Title |
wild-type heart 7 days post myocardial Infarction |
| Sample type |
SRA |
| |
|
| Source name |
heart cell
|
| Organism |
Mus musculus |
| Characteristics |
tissue: heart
genotype: wildtype
disease state: 7 days post myocardial Infarction
|
| Extracted molecule |
total RNA |
| Extraction protocol |
1wk post MI hearts were harvested and digested by liberase as described later. After digestion, cells were incubated with 10µM Calcein AM (Abcam, ab141420) and flow sorted to identify live cells followed by library preparation.
Library was generated by Chromium™ Single Cell 3’ Library Construction (10x Genomics).
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Data processing |
Libraries were sequenced by Illumina NextSeq 500 Sequencing System.
fastq files were generated using Cellranger mkfastq (version 3.0.2). The raw reads were mapped to human reference genome (refdata-cellranger-mm10-3.0.0) using cellranger count.
Multiple samples were aggregated by cellranger aggr.
Genome_build: mm10
Supplementary_files_format_and_content: Matrix table with raw gene counts for every gene and every cell
Supplementary_files_format_and_content: MI7D_metadata.txt.gz contains cell barcode and cell type
|
| |
|
| Submission date |
Jun 09, 2020 |
| Last update date |
Jun 10, 2020 |
| Contact name |
Feiyang Ma |
| Organization name |
UCLA
|
| Department |
Molecular Biology Institute
|
| Lab |
Pellegrini Lab
|
| Street address |
610, Charles Young Dr East, TLSB 3000C
|
| City |
Los Angeles |
| State/province |
CA |
| ZIP/Postal code |
90095 |
| Country |
USA |
| |
|
| Platform ID |
GPL19057 |
| Series (1) |
| GSE152122 |
Examination of mouse heart cell expression changes after myocardial Infarction |
|
| Relations |
| BioSample |
SAMN15187308 |
| SRA |
SRX8510437 |
