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Sample GSM2067739 Query DataSets for GSM2067739
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

Supplementary data files not provided
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

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