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Sample GSM1229028 Query DataSets for GSM1229028
Status Public on Jun 10, 2015
Title MEF_c-Jun
Sample type SRA
 
Source name mouse embryonic fibroblasts (MEFs)
Organism Mus musculus
Characteristics cell type: OG2 transgenic mouse embryonic fibroblasts (MEFs)
passages: P2
strain: 1/2 129SVJ+3/8 C57B6+1/13 CBA
genotype/variation: overexpressed c-Jun in MEF
Extracted molecule total RNA
Extraction protocol Total RNA was extracted by Trizol-based protocol.
The libraries were prepared according to Illumina TruSeq® RNA sample preparation Kit.
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina MiSeq
 
Description overexpressed c-Jun in MEF
Data processing Illumina Casava1.8 software used for basecalling.
Sequenced reads were trimmed for adaptor sequence, and masked for low-complexity or low-quality sequence.
Transcripts per million(TPM) were calculated using RSEM(1.1.21) with parameters(-p 8 --estimated-rspd --no-bam-output).
Genome_build: mm9
Supplementary_files_format_and_content: TXT files including tau values for each RNA-seq samples, and TPM values are generated for all the samples.
 
Submission date Sep 11, 2013
Last update date May 15, 2019
Contact name Lihui Lin
E-mail(s) lin_lihui@gibh.ac.cn
Phone 020-32015291
Organization name Guangzhou Institutes Of Biomedicine and Health Chinese Academy Of Science
Department Stem cell
Lab Pei Duanqing
Street address No.190, Kaiyuan Street
City Guangzhou
State/province Guangdong
ZIP/Postal code GD20
Country China
 
Platform ID GPL16417
Series (1)
GSE50776 c-Jun impedes somatic cell reprogramming by activating mesenchymal core regulators and suppressing pluripotent ones
Relations
BioSample SAMN02354059
SRA SRX348628

Supplementary file Size Download File type/resource
GSM1229028_MEF_c-Jun.genes.results.txt.gz 324.5 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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