|
| Status |
Public on Jun 24, 2024 |
| Title |
HBC, 50nM PMA-treated, 12 hours, rep1 |
| Sample type |
SRA |
| |
|
| Source name |
olfactory epithelium
|
| Organism |
Rattus norvegicus |
| Characteristics |
tissue: olfactory epithelium
cell line: primary dissociation
cell type: horizontal basal cell
strain: SD
time: 12
passage: 7
treatment: 50nM Phorbol 12-myristate 13-acetate treated
|
| Growth protocol |
HBCs were cultured using our established primary culture HBC culture system (Peterson et al., 2019) with slight modifications to the antibiotic regimen. Instead of utilizing Penicillin-Streptomycin, we used Primocin (100 μg/ml final concentration) and anti-mycotic/anti-biotic (1X final concentration, Gibco Catalogue #15240062).
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was extracted using the PureLink RNA MiniKit and residual DNA was removed with the PureLink DNAse kit
libraries were prepared by Novagene. Inc
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Data processing |
Novogene Inc trimmed raw reads
aligned to the rat genome with STAR version 2.7.5b with setting —quantMode GeneCounts
raw counts were normalized with DESeq2
Assembly: rn6
Supplementary files format and content: text files which include unnormalized gene counts from STAR for each sample
|
| |
|
| Submission date |
Oct 14, 2022 |
| Last update date |
Jun 24, 2024 |
| Contact name |
Camila Barrios-Camacho |
| Organization name |
Tufts University
|
| Lab |
Schwob
|
| Street address |
136 Harrison Avenue
|
| City |
Boston |
| State/province |
MA |
| ZIP/Postal code |
02111 |
| Country |
USA |
| |
|
| Platform ID |
GPL25947 |
| Series (1) |
| GSE215797 |
An in vitro model of acute horizontal basal cell activation reveals dynamic gene regulatory networks underlying the acute activation phase |
|
| Relations |
| BioSample |
SAMN31285414 |
| SRA |
SRX17892865 |
