|
| Status |
Public on Oct 21, 2021 |
| Title |
rheb BAD KO |
| Sample type |
SRA |
| |
|
| Source name |
brown adipose tissue
|
| Organism |
Mus musculus |
| Characteristics |
strain: C57BL/6J
genotype: littermates with rheb knockout in brown adipocytes
age: 1-month
Sex: male
|
| Growth protocol |
Mice lacking Rheb in the brown adipocyte lineage were generated by mating RhebFL/FL mice with UCP1-Cre mice.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted with Trizol.
Following purification, the mRNA was fragmented into small pieces using divalent cations under elevated temperature. Then the cleaved RNA fragments were reverse-transcribed to create the final cDNA library in accordance with the protocol for the TruSeq RNA Sample Preparation v.2 (cat. no. RS-122-2001, RS-122-2002) (Illumina)
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Data processing |
Total RNA quantity and purity were analyzed using a Bioanalyzer 2100 and an RNA 6000 Nano LabChip kit (Agilent), with RNA integrity values of >7.0.
The final cDNA library were created in accordance with the protocol for the TruSeq RNA Sample Preparation v.2
Before assembly, low-quality reads were removed using Trimmomatic software.
Sequencing reads were aligned to the reference genome using the HISAT2 package.
The mapped reads of each sample were assembled and counted using the featureCounts package and a matrix of read counts was generated.
Genome_build: mm10
Supplementary_files_format_and_content: read counts matrix
|
| |
|
| Submission date |
Oct 19, 2021 |
| Last update date |
Oct 21, 2021 |
| Contact name |
zhipeng zou |
| E-mail(s) |
zzp@smu.edu.cn
|
| Organization name |
southern medical university
|
| Department |
Cell Biology
|
| Street address |
tonghe road
|
| City |
guangzhou |
| State/province |
guangdong |
| ZIP/Postal code |
510515 |
| Country |
China |
| |
|
| Platform ID |
GPL17021 |
| Series (2) |
| GSE186093 |
genes differentially expressed in brown adipose tissue between the control mice (rheb FL/FL) and rheb BAD KO mice (Ucp1-cre; rheb FL/FL) |
| GSE186094 |
genes differentially expressed between the control mice (rhebFL/FL) and rheb BAD KO mice (Ucp1-cre; rhebFL/FL) |
|
| Relations |
| BioSample |
SAMN22397089 |
| SRA |
SRX12681213 |
