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Sample GSM4889026 Query DataSets for GSM4889026
Status Public on May 03, 2021
Title C2C12_rep2
Sample type SRA
 
Source name C2C12
Organism Mus musculus
Characteristics strain source: C3H
cell line: C2C12
cell type: skeletal muscle cell line
genotype: WT
Treatment protocol none
Growth protocol C2C12 control and C2C12 Hira KO cell lines were collected when grown in high serum medium at low density (proliferating conditions)
Extracted molecule total RNA
Extraction protocol C2C12 cells were collected for RNA extraction using Machery Nagel NucleoSpin RNA purification kit
Libraries were prepared with TruSeq Stranded Total RNA Sample preparation kit according to supplier recommendations. Briefly, the key stages of this protocol are successively, the removal of ribosomal RNA fraction from 1µg of total RNA using the Ribo-Zero Gold Kit; fragmentation using divalent cations under elevated temperature to obtain approximately 300bp pieces; double strand cDNA synthesis using reverse transcriptase and random primers, and finally Illumina adapters ligation and cDNA library amplification by PCR for sequencing
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 4000
 
Data processing FASTQ groomer tool (https://usegalaxy.org)
BOWTIE2 v2.3.4.2 (https://usegalaxy.org)
featureCounts v1.6.3+galaxy2 (https://usegalaxy.org)
Genome_build: mm10
Supplementary_files_format_and_content: DESeq2 v2.11.40.6+galaxy1 (https://usegalaxy.org)
 
Submission date Nov 08, 2020
Last update date May 03, 2021
Contact name Joana Esteves de Lima
E-mail(s) joanaesteveslima@gmail.com
Organization name INSERM
Department IMRB INSERM U955
Lab Team RELAIX
Street address 8 rue du general sarrail
City Creteil
ZIP/Postal code 94000
Country France
 
Platform ID GPL21103
Series (2)
GSE161055 Analysis of the transcriptomic changes of myoblasts lacking Hira [RNA-seq]
GSE161056 ATAC-seq, ChIP-seq and RNA-seq studies in myoblasts lacking Hira
Relations
BioSample SAMN16706618
SRA SRX9460304

Supplementary file Size Download File type/resource
GSM4889026_C2C12_rep2_counts.txt.gz 243.5 Kb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file
Processed data are available on Series record

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