|
| Status |
Public on May 29, 2019 |
| Title |
WTRC6BAT |
| Sample type |
SRA |
| |
|
| Source name |
BAT tissue
|
| Organism |
Mus musculus |
| Characteristics |
strain: C57BL/6
cell type: BAT adipocytes
genotype: wild type
|
| Treatment protocol |
Fed with regular chow
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Adipose tissue (iWAT and eWAT) of 16-week-old C57BL/6J mice (males) was digested with KRH buffer (2% FFA-free BSA) containing 3.3mg/ml collagenase I via incubation at 37 ℃ for 30-45 min. When the tissue was fully digested, 10 ml of KRH buffer was added to terminate collagenase activity. Cells were then filtered through a 250 μm cell strainer. After 10 min, the floating top layer containing mature adipocytes was collected. Mature adipocytes were washed twice with KRH buffer containing 5 mM EDTA and then used for RNA-seq analysis. Brown adipose tissues (BAT) were isolated and quickly freezed in liquied nitrogen.
Total RNA extracted from mature adipocytes (iWAT and eWAT) and BAT tissue. RNAs with RIN >8 (assessed by the Agilent 2100 Bioanalyzer system) were used to prepare transcriptome libraries using the NEBNext Ultra RNA library prep kit (New England Biolabs).
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Data processing |
Reads were trimmed for adapter sequences using cutadapt v1.16.
Trimmed reads were then aligned to the mouse mm9 genome using hisat v2.1.0
Expression data were analyzed by genomatix genome analyzer.
Genome_build: mm9
Supplementary_files_format_and_content: tsv files include RPKM values for each Sample ...
|
| |
|
| Submission date |
May 28, 2019 |
| Last update date |
May 29, 2019 |
| Contact name |
LEI WANG |
| E-mail(s) |
lei.wang2@nih.gov
|
| Organization name |
NIH
|
| Street address |
Building 8A, Room B1A05 8 Center Dr , MD 20814
|
| City |
Bethesda |
| State/province |
MD |
| ZIP/Postal code |
20814 |
| Country |
USA |
| |
|
| Platform ID |
GPL17021 |
| Series (1) |
| GSE131861 |
RNA-seq Analysis of Gs-linked GPCRs expressed in mouse inguinal white adipocytes (iWAT), epididymal white adipocytes (eWAT) and brown adipose tissues (BAT) |
|
| Relations |
| BioSample |
SAMN11875125 |
| SRA |
SRX5910742 |
