|
| Status |
Public on Dec 22, 2023 |
| Title |
Astrocyte Allo-2 |
| Sample type |
SRA |
| |
|
| Source name |
E18 Primary Astrocyte
|
| Organism |
Rattus norvegicus |
| Characteristics |
cell type: E18 Primary Astrocyte
treatment: Allo treated
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was purified using PureLink™ RNA Mini Kit (Invitrogen, 12183018A) following manufacturer’s instructions. Purelink™ DNase (Invitrogen, 12185010) was used to eliminate DNA contamination. Purified RNA was eluded in RNase-free, diH2O. RNA concentration and quality were checked by NanoDrop™ One.
RNA libraries for RNA-seq were prepared using the Stranded mRNA-Seq library prep kit following manufacturer's protocols.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Data processing |
Transcripts were mapped to rat genome (ensemble release 95) using Salmon 0.14
Tximport V1.6.0 was used to generate a counts table
DESeq2 V1.18.1 was used to calculate normalized read counts for each gene and/or transcript and to perform expression analysis
Assembly: rat genome (ensemble release 95)
Supplementary files format and content: csv files of normalized count
Supplementary files format and content: csv files of VST-nomalized expression
|
| |
|
| Submission date |
Apr 13, 2023 |
| Last update date |
Dec 22, 2023 |
| Contact name |
Tian Wang |
| E-mail(s) |
tianwang@arizona.edu
|
| Organization name |
Univeristy of Arizona
|
| Department |
Center for innovation in brain science
|
| Street address |
1230 N Cherry Avenue
|
| City |
Tucson |
| State/province |
AZ |
| ZIP/Postal code |
85721 |
| Country |
USA |
| |
|
| Platform ID |
GPL25947 |
| Series (1) |
| GSE229627 |
Allopregnanolone Pleiotropic Action in Neurons and Astrocytes: Calcium Signaling Pathways as the Unifying Mechanism |
|
| Relations |
| SRA |
SRX19952300 |
| BioSample |
SAMN34165570 |
