|
| Status |
Public on Aug 08, 2024 |
| Title |
Nasal swab cells, K9_CR_3251 |
| Sample type |
SRA |
| |
|
| Source name |
nasal swab cells
|
| Organism |
Canis lupus familiaris |
| Characteristics |
tissue: nasal swab cells
disease: rhinitis
|
| Treatment protocol |
RNA Later preservation, PBS wash
|
| Growth protocol |
Nasal swabs
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Rneasy Mini
Takara Bio SMARTseq
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 4000 |
| |
|
| Data processing |
Partek Flow software, version 10.0
filtered by removing reads containing adapters and reads containing N > 10% and for Phred scores >30
Filtered reads were aligned with STAR 2.7.3a, using CanFam3.1 genome
Aligned reads were annotated and counted using HT-seq
differentially expressed genes were identified using DEseq2
Assembly: CanFam3.1
Supplementary files format and content: txt file with median ratio normalized counts
|
| |
|
| Submission date |
Feb 09, 2024 |
| Last update date |
Aug 08, 2024 |
| Contact name |
Steven Dow |
| E-mail(s) |
sdow@colostate.edu
|
| Organization name |
Colorado State University
|
| Department |
Clinical Sciences
|
| Lab |
ACC 254
|
| Street address |
300 W Drake Rd
|
| City |
Fort Collins |
| State/province |
CO |
| ZIP/Postal code |
80524 |
| Country |
USA |
| |
|
| Platform ID |
GPL24229 |
| Series (1) |
| GSE255529 |
Host-Microbe Interactions in the Nasal Cavity of Dogs with Chronic Idiopathic Rhinitis |
|
| Relations |
| BioSample |
SAMN39909518 |
| SRA |
SRX23592445 |
