|
Status |
Public on Jan 08, 2018 |
Title |
Ohr14A |
Sample type |
SRA |
|
|
Source name |
total RNA extracted from skin (ear)
|
Organism |
Mus musculus |
Characteristics |
strain: C57Bl/6J age: 24.4 months age_category: young tissue: skin
|
Extracted molecule |
total RNA |
Extraction protocol |
Total RNA from was extracted as described (Baumgart et al., 2012; PMID:22487494) Preparation of libraries was done using Illumina’s TruSeq RNA sample prep kit v2 following the manufacturer’s instruction.
|
|
|
Library strategy |
RNA-Seq |
Library source |
transcriptomic |
Library selection |
cDNA |
Instrument model |
Illumina HiSeq 2000 |
|
|
Description |
Ohr14A
|
Data processing |
Illumina Casava v1.8.4 software used for extraction of FASTQ files Reads were mapped using Tophat (v2.1.0) to the genome taken the annotation into account: -p 4 -g 1 –no-coverage-search –library-type fr-unstranded Counting of reads per gene was done using htseq-count (0.6.1p1): htseq-count --stranded=no -m=union -a 20 -t exon Genome_build: UCSC mm10, Gencode vM6 Supplementary_files_format_and_content: tab separated file contains read counts per gene and sample
|
|
|
Submission date |
Feb 19, 2016 |
Last update date |
May 15, 2019 |
Contact name |
Marco Groth |
E-mail(s) |
cfngs@leibniz-fli.de
|
Organization name |
Leibniz Institute on Aging - FLI
|
Department |
Core Facility - Next Generation Sequencing
|
Street address |
Beutenbergstraße 11
|
City |
Jena |
ZIP/Postal code |
07747 |
Country |
Germany |
|
|
Platform ID |
GPL13112 |
Series (1) |
GSE78130 |
Deep sequencing of mRNA from Mus musculus at two different timepoints in skin (ear clip) |
|
Relations |
BioSample |
SAMN04505011 |
SRA |
SRX1594742 |