|
| Status |
Public on Mar 01, 2015 |
| Title |
C1 Med live cell 1 |
| Sample type |
SRA |
| |
|
| Source name |
Primary foreskin fibroblast cells
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: CRL2097
cell type: med live
|
| Extracted molecule |
polyA RNA |
| Extraction protocol |
Cells were added to the Fluidigm C1 Single Cell Auto Prep System at 200K cells/ml. ERCC control mix 1 was added at a dilution of 1:10,000.
First- and second-strand synthesis were performed on the C1 Single Cell Auto Prep System. Final library prep was performed using the Illumina Nextera XT DNA sample preparation kit, using the modified protocol in the C1 manual.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Description |
sample id: Live-PL1-A02
processed data file: singlecellseq_star_HTSeqCounts.tsv
|
| Data processing |
Aligned reads to genome using STAR
Assigned counts per gene using HTSeq
Genome_build: hg19
Supplementary_files_format_and_content: tab-delimited text files include counts for all genes and samples. All single-cell data is compiled into a single .tsv file, and there is a separate .txt file for the bulk data from each cell line.
|
| |
|
| Submission date |
Feb 18, 2015 |
| Last update date |
May 15, 2019 |
| Contact name |
Arjun Raj |
| Organization name |
University of Pennsylvania
|
| Department |
Bioengineering
|
| Street address |
210 S. 33rd St., Ste. 240 Skirkanich Hall
|
| City |
Philadelphia |
| State/province |
PA |
| ZIP/Postal code |
19104 |
| Country |
USA |
| |
|
| Platform ID |
GPL18573 |
| Series (1) |
| GSE66053 |
Single mammalian cells compensate for differences in cellular volume and DNA copy number through independent global transcriptional mechanisms |
|
| Relations |
| BioSample |
SAMN03353374 |
| SRA |
SRX883404 |
