|
| Status |
Public on Apr 27, 2017 |
| Title |
RNAseq, WT rep2 |
| Sample type |
SRA |
| |
|
| Source name |
Brown adipose tissue
|
| Organism |
Mus musculus |
| Characteristics |
strain: Mixed
genotype: WT
age: 8 weeks
|
| Growth protocol |
Mice were maintained on chow at room temperature
|
| Extracted molecule |
polyA RNA |
| Extraction protocol |
Brown adipose tissue was harvested from adult mice. Tissue was homogenized in TRIzol. RNA was isolated using the TRIzol method (Invitrogen) combined with Ambion PureLink RNA purification.
RNA-seq libraries were prepared using Illumina Truseq RNA Sample Preparation Kit.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2000 |
| |
|
| Description |
RNAseq_WT_2
|
| Data processing |
RNA-seq reads were aligned to mm9 using STAR pipeline (Dobin et al. 2013). Differentially expressed genes between WT and Ebf2 KO tissue were identified via an exact test using edgeR package (Robinson et al. 2010).
Genome_build: mm9
Supplementary_files_format_and_content: Excel file containing edgeR differential analysis results
|
| |
|
| Submission date |
Mar 28, 2017 |
| Last update date |
May 15, 2019 |
| Contact name |
Hee-Woong Lim |
| Organization name |
Cincinnati Children's Hospital Medical Center
|
| Department |
Division of Biomedical Informatics
|
| Street address |
3333 Burnet Ave. MLC 7024
|
| City |
Cincinnati |
| State/province |
Ohio |
| ZIP/Postal code |
45229 |
| Country |
USA |
| |
|
| Platform ID |
GPL13112 |
| Series (2) |
| GSE97115 |
Ebf2 Knockout Brown Adipose Tissue [RNA-Seq] |
| GSE97116 |
Ebf2 Knockout Brown Adipose Tissue |
|
| Relations |
| BioSample |
SAMN06646699 |
| SRA |
SRX2676945 |
