|
| Status |
Public on Dec 19, 2014 |
| Title |
eWAT539_day2 |
| Sample type |
SRA |
| |
|
| Source name |
eWAT.2c
|
| Organism |
Mus musculus |
| Characteristics |
strain: C57BL/6J
age: 8 weeks
gender: male
tissue: epididymal white adipose tissue
treatment: 2 day in cold exposure
|
| Treatment protocol |
Mice were kept at thermoneutrality for 8 days acclimation before treatment. Mice were divided into 3 groups. Two groups were transferred to 4 degree for 2 and 4 days. The third group was sacrificed without cold exposure.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Adipose tissues were dissected, snap frozen in liquid nitrogen, and total RNA was harvested using Trizol reagent was used with 1 ug of total RNA for the construction of sequencing libraries.
RNA libraries were prepared for sequencing using standard Illumina protocols
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina Genome Analyzer II |
| |
|
| Data processing |
Illumina software used for basecalling.
Sequenced reads were trimmed for adaptor sequence, and masked for low-quality sequence by using cutadapt with parameters -m 15 -e 0.05, then mapped to refMrna downloaded from UCSC using bwa with parameters -n 1
The number of reads which uniquely mapped to the RefSeq transcripts were counted for each gene, then merged into one file for each tissue.
Genome_build: mm10
Supplementary_files_format_and_content: tab-delimited text files include tag counts for each sample ...
|
| |
|
| Submission date |
Nov 06, 2014 |
| Last update date |
May 15, 2019 |
| Contact name |
Qin Hao |
| E-mail(s) |
[email protected]
|
| Organization name |
Copenhagen University
|
| Street address |
kanslergade 1
|
| City |
Odense |
| ZIP/Postal code |
5000 |
| Country |
Denmark |
| |
|
| Platform ID |
GPL9250 |
| Series (1) |
| GSE63031 |
Transcriptome profiling of brown adipose tissue during cold exposure |
|
| Relations |
| BioSample |
SAMN03165641 |
| SRA |
SRX752822 |
