|
| Status |
Public on Jan 06, 2021 |
| Title |
KO2__7W_No356 |
| Sample type |
SRA |
| |
|
| Source name |
Liver
|
| Organism |
Mus musculus |
| Characteristics |
strain/background: C57BL/6
genotype/variation: Gdown1KO_Alb-Cre
tissue: Liver
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Liver tissue samples were homogenized in TRIZOL and purified by RNA Clean & concentrator (Zymo research).
RNA libraries were generated using SMARTer® Stranded Total RNA Sample Prep Kits (Takara Bio) according to the manufacturer’s instructions.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Description |
Gdown1KO_Alb-Cre_rep2
|
| Data processing |
Basecalls performed using CASAVA version 1.82.
RNA-seq reads were filtered for quality and 3' trimmed for adapter sequences.
RNA-seq reads were aligned to the mm10 genome assembly using hisat2 with default parameters.
Transcript abundances were estimated reported as raw read counts using featureCounts.
Differential expression was analyzed using R script.
Genome_build: mm10 (GRCm38)
Supplementary_files_format_and_content: *txt: Tab-delimited text files include read counts for each sample.
|
| |
|
| Submission date |
Jan 24, 2020 |
| Last update date |
Jan 06, 2021 |
| Contact name |
Miki JIshage |
| E-mail(s) |
jishagm@mail.rockefeller.edu
|
| Phone |
212-327-7605
|
| Organization name |
Rockefeller University
|
| Street address |
1230 York Avenue
|
| City |
New York |
| State/province |
NY |
| ZIP/Postal code |
10065 |
| Country |
USA |
| |
|
| Platform ID |
GPL19057 |
| Series (2) |
| GSE144210 |
Differentially expressed genes in Gdown1 knockout and Gdown1/p53 double-knockout mouse liver [RNA-seq] |
| GSE144212 |
Transcriptional down-regulation of metabolic genes by Gdown1 ablation induces quiescent cell re-entry into the cell cycle |
|
| Relations |
| BioSample |
SAMN13916517 |
| SRA |
SRX7626933 |
