|
| Status |
Public on Jan 20, 2023 |
| Title |
ZT(Hightest)_12month_WT |
| Sample type |
SRA |
| |
|
| Source name |
Liver
|
| Organism |
Mus musculus |
| Characteristics |
tissue: Liver
time: ZT(Hightest)
age: 12month
genotype: wild type
|
| Extracted molecule |
polyA RNA |
| Extraction protocol |
liver were removed, flash frozen on dry ice, and RNA was harvested using Trizol reagent. Illumina TruSeq RNA Sample Prep Kit (Cat#FC-122-1001) was used with 1 ug of total RNA for the construction of sequencing libraries.
mRNAs were enriched with poly-T oligo-attached magnetic beads using NEBNext First Strand Synthesis Reaction Buffer (5×) and then fragmented into small pieces. These cleaved RNA fragments were reverse-transcribed to create a cDNA library using Illumina's NEBNext® UltraTM RNA Library Prep Kit; the average insert size for the paired-end libraries was 300 bp (± 50 bp).
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2000 |
| |
|
| Description |
tab-delimited text files include estimated counts for each sample
|
| Data processing |
After sequencing and removal of low-quality reads that contained adaptor contamination, low-quality bases and undetermined bases using fastp software, the sequenced reads were aligned to the mouse genome(mm10) using HISAT2. FeatureCounts was used to determine the mRNA expression levels.
Assembly: mm10
Supplementary files format and content: tab-delimited text files include estimated counts for each sample
|
| |
|
| Submission date |
Jan 20, 2023 |
| Last update date |
Feb 15, 2023 |
| Contact name |
Wang Haiquan |
| E-mail(s) |
mg1835020@smail.nju.edu.cn
|
| Phone |
+86-17865182827
|
| Organization name |
Nanjing University
|
| Street address |
Hankou Road
|
| City |
Nanjing |
| ZIP/Postal code |
250014 |
| Country |
China |
| |
|
| Platform ID |
GPL13112 |
| Series (1) |
| GSE195456 |
Hepatic circadian gene expression in WT and liver specific Egr-1 knockout mice aged 2month, 6month and 12month |
|
| Relations |
| BioSample |
SAMN33214292 |
| SRA |
SRX19315600 |
