|
| Status |
Public on Oct 23, 2024 |
| Title |
RPE, 14 days post torpor, Rep2 |
| Sample type |
SRA |
| |
|
| Source name |
Retinal pigment epithelium
|
| Organism |
Ictidomys tridecemlineatus |
| Characteristics |
tissue: Retinal pigment epithelium
condition: 14 days post torpor
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated with the miRNeasy micro kit with an optional DNase step, per the manufacturer’s protocol (Qiagen, Hilden, Germany)
The total RNA was used to generate cDNA libraries with the Illumina TruSeq stranded Total RNA kit
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Data processing |
de novo transcriptome generation with Trinity v2.13.1
alignment with Bowtie2 v2.4.1
quantification with RSEM v1.2.15
Assembly: de novo transcriptome
Supplementary files format and content: .Robj file containing matrix with RSEM expression values for each gene in each sample
|
| |
|
| Submission date |
Nov 29, 2023 |
| Last update date |
Oct 23, 2024 |
| Contact name |
Kurt Weir |
| E-mail(s) |
[email protected]
|
| Organization name |
Johns Hopkins School of Medicine
|
| Street address |
733 North Broadway
|
| City |
Baltimore |
| ZIP/Postal code |
21205 |
| Country |
USA |
| |
|
| Platform ID |
GPL29082 |
| Series (1) |
| GSE248932 |
StrokeofGenus: RNA-seq in five tissues of the hibernating 13-lined ground squirrel |
|
| Relations |
| BioSample |
SAMN38502225 |
| SRA |
SRX22682778 |
