|
| Status |
Public on May 30, 2019 |
| Title |
e10.5_heart_ventriculars |
| Sample type |
SRA |
| |
|
| Source name |
whole ventricular chambers from embryonic hearts
|
| Organism |
Mus musculus |
| Characteristics |
strain/background: CD1
developmental stage: E10.5
tissue: whole ventricular chambers
|
| Growth protocol |
Mouse embryonic heart dissected from mouse embryos at E10.5.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
This step was done by following the 10x Genomics single cell preparation protocol.
This step was done by following the 10x Genomics single cell library preparation protocol.
Only the 3' end of mRNA fragments were used to make library. One end of the fragments were added P5, read1 Illumina sequencing primer, 16 base pairs of 10x barcode, and UMI sequences; The other end ligated with P7, sample index sequences, and Illumina read2 sequencing primer sequences.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 4000 |
| |
|
| Description |
The whole ventricular chambers from mouse embryonic hearts.
oligodT was used to reverse transcribe the single cell derived mRNAs.
|
| Data processing |
The single cell library was sequenced with Illumina hiseq 4000 platform.
Sequencing reads were aligned to mouse MM10 reference genome with Cell Ranger.
Genome_build: mm10 (GRCm38)
Supplementary_files_format_and_content: matrix.mtx, barcodes.tsv, genes.tsv
|
| |
|
| Submission date |
Nov 09, 2018 |
| Last update date |
May 30, 2019 |
| Contact name |
Guang Li |
| E-mail(s) |
guangli@pitt.edu
|
| Organization name |
University of Pittsburgh
|
| Department |
Developmental Biology
|
| Lab |
Guang Li lab
|
| Street address |
530 45th St. 8116 Rangos Research Center
|
| City |
Pittsburgh |
| State/province |
PA |
| ZIP/Postal code |
15201 |
| Country |
USA |
| |
|
| Platform ID |
GPL21103 |
| Series (1) |
| GSE122403 |
Single cell expression analysis reveals anatomical and cell cycle-dependent transcriptional shifts during heart development |
|
| Relations |
| BioSample |
SAMN10407938 |
| SRA |
SRX5000873 |
