|
Status |
Public on Feb 08, 2020 |
Title |
Sample 127458: WTICD1 |
Sample type |
SRA |
|
|
Source name |
lung
|
Organism |
Cricetulus griseus |
Characteristics |
genotype: Beta1-ICD tissue: lung
|
Treatment protocol |
No treatment
|
Growth protocol |
Incubator; 37 degrees C and 5% CO2
|
Extracted molecule |
polyA RNA |
Extraction protocol |
Qiagen RNeasy Plus Mini Kit stranded TruSeq mRNA (poly A selection).
|
|
|
Library strategy |
RNA-Seq |
Library source |
transcriptomic |
Library selection |
cDNA |
Instrument model |
Illumina NovaSeq 6000 |
|
|
Data processing |
RNA-Seq was performed using Illumina NovaSeq-6000, paired-end 50 cycle Base-calling software: Illumina Casava 1.8 software Alignment was conducted using TopHat (version 2.0.13) and Bowtie (version 2.2.1), with default parameter settings, with exception of: "---b2-very-sensitive" for additional search of valid alignments Expression quantitation was performed with HTSeq Genome_build: CriGri_1.0 Supplementary_files_format_and_content: htseq raw counts
|
|
|
Submission date |
Sep 05, 2019 |
Last update date |
Apr 06, 2020 |
Contact name |
Bioinformatics Core |
E-mail(s) |
[email protected]
|
Organization name |
University of Michigan
|
Street address |
BRCF Bioinformatics Core, 2800 Plymouth Rd
|
City |
Ann Arbor |
State/province |
Mi |
ZIP/Postal code |
48109-2800 |
Country |
USA |
|
|
Platform ID |
GPL27425 |
Series (1) |
GSE136927 |
Voltage-gated sodium channel (VGSC) beta1 subunit-intracellular domain (Beta1-ICD) overexpression in Chinese hamster lung cells |
|
Relations |
BioSample |
SAMN12699083 |
SRA |
SRX6805922 |