|
| Status |
Public on Jul 11, 2023 |
| Title |
donor2_biorepl1_techrepl1 |
| Sample type |
SRA |
| |
|
| Source name |
peripheral blood monocytes
|
| Organism |
Homo sapiens |
| Characteristics |
cell type: peripheral blood monocytes
genotype: WT
strain: donor no. 2
|
| Extracted molecule |
polyA RNA |
| Extraction protocol |
Qiagen Mini
SMART-Seq v4 PLUS kit (Takara)
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Description |
donor no. 2 peripheral blood monocytes
Donor no. 2 peripheral blood monocytes, biological replicate 1, library preparation replicate 1
STARA_E3.Human_only.counts.tsv
|
| Data processing |
Sequence reads were aligned on two alellic pseudogenomes using STAR v2.7.9a (with parameters –outSAMattributes vA vG).
Uniquely aligned reads were assigned towards one of the alleles according to their SNP calls and alignment quality (see https://github.com/gimelbrantlab/fastq2allelictabs).
Allelic gene counts were calculated using featurecounts v2.0.2.
Supplementary files format and content: Tab-delimited text files include allelic gene count values for each sample.
|
| |
|
| Submission date |
Mar 22, 2023 |
| Last update date |
Jul 11, 2023 |
| Contact name |
Asia Mendelevich |
| Organization name |
Altius
|
| Street address |
2211 Elliott Ave
|
| City |
Seattle |
| State/province |
WA |
| ZIP/Postal code |
98121 |
| Country |
USA |
| |
|
| Platform ID |
GPL24676 |
| Series (2) |
| GSE228004 |
Foreign RNA spike-ins enable accurate allele-specific expression analysis at scale [III] |
| GSE228009 |
Foreign RNA spike-ins enable accurate allele-specific expression analysis at scale |
|
| Relations |
| BioSample |
SAMN33864456 |
| SRA |
SRX19751509 |
