|
| Status |
Public on Aug 30, 2018 |
| Title |
Bmal1-liverKO HFD ad lib ZT8 rep1 |
| Sample type |
SRA |
| |
|
| Source name |
Liver
|
| Organism |
Mus musculus |
| Characteristics |
strain: C57BL/6
tissue: Liver
age: 24 weeks
genotype: Bmal1-liverKO
feeding group: FA
time: ZT8
|
| Extracted molecule |
polyA RNA |
| Extraction protocol |
Liver were dissected out, flash frozen in liquid nitrogen, and RNA was prepared using Qiagen RNeasy Mini Kit.
Libraries were prepped using Illumina’s TruSeq Stranded mRNA HT kit according to manufacturer’s instructions, starting with 1ug of RNA
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Description |
FPKM_GRCm38_symbol.csv
|
| Data processing |
Reads of length 76 were trimmed to 51 nt
Reads were aligned to the mouse GRCm38 genome with STAR
Read counts per gene were calculated using FeatureCounts
DESeq2 was used to generate FPKM values
Genome_build: GRCm38
Supplementary_files_format_and_content: comma-separated values containing FPKM quantification for all samples
|
| |
|
| Submission date |
Jul 31, 2017 |
| Last update date |
May 15, 2019 |
| Contact name |
Max Chang |
| E-mail(s) |
mchang@ucsd.edu
|
| Organization name |
University of California, San Diego
|
| Street address |
9500 Gilman Drive
|
| City |
La Jolla |
| State/province |
CA |
| ZIP/Postal code |
92093 |
| Country |
USA |
| |
|
| Platform ID |
GPL17021 |
| Series (1) |
| GSE102072 |
Hepatic transcriptome by Next Generation Sequencing of WT and clock mutant mice fed a HFD ad libitum or time-restricted feeding. |
|
| Relations |
| BioSample |
SAMN07428283 |
| SRA |
SRX3050442 |
