 |
 |
GEO help: Mouse over screen elements for information. |
|
| Status |
Public on Oct 23, 2024 |
| Title |
Retina, Torpor, Rep3 |
| Sample type |
SRA |
| |
|
| Source name |
Retina
|
| Organism |
Ictidomys tridecemlineatus |
| Characteristics |
tissue: Retina
condition: 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 |
SAMN38502264 |
| SRA |
SRX22682739 |
| Supplementary data files not provided |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
|
|
|
|
 |
