|
| Status |
Public on Jan 11, 2022 |
| Title |
SHR36 carotid body left |
| Sample type |
SRA |
| |
|
| Source name |
Carotid body
|
| Organism |
Rattus norvegicus |
| Characteristics |
strain: SHR/NHsd
tissue: Carotid body
gender: male
age: 12-14 weeks old
|
| Extracted molecule |
polyA RNA |
| Extraction protocol |
Animals were euthanised with pentobarbital sodium (euthatal) and intracardially perfused with ice-cold PBS. Carotid bodies were excised from the common carotid artery bifurcation under the dissecting microscope and immediately snap-frozen in liquid nitrogen. Tissue was homogenized using QIAzol lysis reagent. Total RNA was extracted using phenol:chloroform phase separation method and isolated using ZYMO direct-zol RNA microprep kit following manufacturers instructions.
Illumina TruSeq® Stranded mRNA library preparation kit (20020594, Illumina)
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Description |
S36_A
|
| Data processing |
Original .fastq files were inspected using FastQC. As all samples passed initial QC no further trimming was applied
.fastq were aligned to the rat reference genome (Rn6) using RNA-STAR mapper
Reads were counted using featureCounts at a gene level
Differential expression analysis was performed using DEseq2
Genome_build: Rn6
Supplementary_files_format_and_content: Matrix table with raw gene counts for every gene and every sample
|
| |
|
| Submission date |
Jun 20, 2021 |
| Last update date |
Jan 11, 2022 |
| Contact name |
Audrys G Pauza |
| E-mail(s) |
ap17113@bristol.ac.uk
|
| Organization name |
University of Bristol
|
| Department |
Bristol Medical School (THS)
|
| Lab |
Murphy Group
|
| Street address |
University of Bristol, The Dorothy Hodgkin Building, Whitson Street
|
| City |
Bristol |
| State/province |
Somerset |
| ZIP/Postal code |
BS1 3NY |
| Country |
United Kingdom |
| |
|
| Platform ID |
GPL20084 |
| Series (1) |
| GSE178504 |
Glucagon-like peptide-1 suppresses sympathetic activation via peripheral chemosensory inhibition |
|
| Relations |
| BioSample |
SAMN19789170 |
| SRA |
SRX11185120 |
