|
| Status |
Public on May 02, 2024 |
| Title |
CDA-HFD7w liver tissue, bio rep 3 |
| Sample type |
SRA |
| |
|
| Source name |
Liver
|
| Organism |
Mus musculus |
| Characteristics |
tissue: Liver
genotype: WT
treatment: CDA-HFD 7w
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA from sorted cells was extracted with TRIzol LS reagent, Favorgen RNA Kit (Favorgen)
RNA-seq libraries were prepared using the Nextera XT Kit (Illumina).
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Description |
7W3
|
| Data processing |
Adaptor sequences were removed from raw data using Trimmomatic (ver. 0.39.0).
Sequencing reads after trimming were aligned to a mouse reference genome sequence (GRCm38/mm10) in the HISAT2 (ver. 2.2.1).
Read counts per gene were calculated using featureCounts (ver.2.0.1) based on GENCODE gene annotation version M25.
The transcripts per million (TPM) normalization was done according to the length of each gene and the sum of mapped reads.
Assembly: GRCm38/mm10
|
| |
|
| Submission date |
Apr 15, 2024 |
| Last update date |
May 02, 2024 |
| Contact name |
Kenichi Asano |
| E-mail(s) |
asanok@toyaku.ac.jp
|
| Organization name |
Tokyo University of Pharmacy and Life Sciences
|
| Department |
Life Sciences
|
| Lab |
Immune Regulation
|
| Street address |
1432-1 Horinouchi
|
| City |
Hachioji |
| State/province |
Tokyo |
| ZIP/Postal code |
1920392 |
| Country |
Japan |
| |
|
| Platform ID |
GPL24247 |
| Series (1) |
| GSE263975 |
RNA-seq analysis of naïve and MASH liver tissue. |
|
| Relations |
| BioSample |
SAMN40972867 |
| SRA |
SRX24260872 |
