|
| Status |
Public on Sep 05, 2018 |
| Title |
6h_1 |
| Sample type |
SRA |
| |
|
| Source name |
interscapular brown adipose tissue
|
| Organism |
Mus musculus |
| Characteristics |
tissue: interscapular brown adipose tissue
ambient temperature: 5°C
duration of cold exposure: 6 hours
strain: C57BL/6J
gender: male
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Interscapular BAT was excised and flash frozen. Total RNA was prepared from frozen tissue with Trisue (Bioline) and column-purified (SV Total RNA Isolation System, Promega).
Libraries were constructed from total RNA (TruSeq RNA Sample Prep kit v2 (Illumina)).
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Data processing |
Sequencing software: HiSeq Control Software 2.2.58 Image analysis and base calling: Real-Time Analysis (RTA) 1.18.64 fastq-file generation: CASAVA BCL2FASTQ Conversion Software 1.8.3
Sequenced reads with masked adaptor sequence were mapped to the murine genome, NCBI build 38, by the Genomatix Mapper 3.7.6 (Genomatix Mining Station, settings: 'deep', min. quality 92%).
Unique hits were subjected to expression analysis for RNA-seq (Genomatix Genome Analyzer, ElDorado version 12-2013) and provided as reads per kilobase of exon per megabase of library size (RPKM).
Genome_build: murine NCBI genome build 38
Supplementary_files_format_and_content: tab-delimited text file providing RPKM values for each sample.
|
| |
|
| Submission date |
Sep 04, 2018 |
| Last update date |
Sep 05, 2018 |
| Contact name |
Tobias Fromme |
| E-mail(s) |
fromme@tum.de
|
| Organization name |
Technical University of Munich
|
| Department |
Molecular Nutritional Medicine
|
| Street address |
Gregor-Mendel-Str. 2
|
| City |
Freising |
| ZIP/Postal code |
85354 |
| Country |
Germany |
| |
|
| Platform ID |
GPL17021 |
| Series (1) |
| GSE119452 |
Transcriptome alterations of murine brown adipose tissue during cold exposure |
|
| Relations |
| BioSample |
SAMN09953920 |
| SRA |
SRX4639157 |
