|
| Status |
Public on Nov 09, 2019 |
| Title |
R370wt |
| Sample type |
SRA |
| |
|
| Source name |
islets of Langherans isolated from wt mice
|
| Organism |
Mus musculus |
| Characteristics |
strain: C57BL/6
tissue: islets of Langerhans
age: 70 weeks old
|
| Treatment protocol |
Islets were isolated from 70 week old mice
|
| Growth protocol |
Mice were housed under a 12-h light/dark cycle and given an ad libitum regular chow diet (A04; Safe)
|
| Extracted molecule |
polyA RNA |
| Extraction protocol |
Total RNA was extracted from isolated islets using TRIzol (Life Technologies, USA)
RNA-Seq libraries were prepared with the 'TruSeq Stranded RNA sample preparation Kit' (Illumina) according to the manufacturer's instructions.
|
| |
|
| Library strategy |
ssRNA-seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Data processing |
Image analyses and base calling were performed using the HiSeq Control Software and Real-Time Analysis component.
Demultiplexing was performed using Illumina's conversion software (bcl2fastq 2.20). The quality of the raw data was assessed using FastQC from the Babraham Institute and the Illumina software SAV (Sequencing Analysis Viewer).
Alignment was performed with TopHat 2.1.1 (with Bowtie 2.2.9) to the mm9 version of the Mus muculus genome. The transcript annotation was retrieved from UCSC on August 31, 2017.
Counting of reads aligned to a gene was performed with HTSeq-count 0.9.0
Genome_build: mm9
Supplementary_files_format_and_content: Tab-separated text file. First column is the gene identifier (gene symbol), the following columns are the raw counts (non-normalized) for each sample.
|
| |
|
| Submission date |
Nov 09, 2018 |
| Last update date |
Nov 09, 2019 |
| Contact name |
Marion de Toledo |
| E-mail(s) |
marion.detoledo@igmm.cnrs.fr
|
| Organization name |
CNRS UMR5535
|
| Department |
IGMM
|
| Street address |
1919 route de Mende
|
| City |
Montpellier |
| ZIP/Postal code |
34293 |
| Country |
France |
| |
|
| Platform ID |
GPL17021 |
| Series (2) |
| GSE122359 |
β-cell adaptation in mice expressing exclusively lamin C counteracts glucose intolerance associated with aging, obesity and diabetes (LamineA-C_RNASeq) |
| GSE122361 |
β-cell adaptation in mice expressing exclusively lamin C counteracts glucose intolerance associated with aging, obesity and diabetes |
|
| Relations |
| BioSample |
SAMN10405193 |
| SRA |
SRX4998193 |
