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Sample GSM1094153 Query DataSets for GSM1094153
Status Public on Mar 08, 2013
Title Tet1CDmut_RNAseq
Sample type SRA
 
Source name mouse embryonic fibroblasts (MEFs)
Organism Mus musculus
Characteristics cell type: OG2 transgenic mouse embryonic fibroblasts (MEFs)
passage: P2
strain: 1/2 129SVJ+3/8 C57B6+1/8 CBA
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 extracting RNA at D3 after infection
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
files format: TXT files including tau values for each RNA-seq samples, and TPM values are generated for all the samples.
 
Submission date Mar 06, 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)
GSE44935 The Role of Tet1 During Somatic Cell Reprogramming
Relations
SRA SRX247082
BioSample SAMN01940693

Supplementary file Size Download File type/resource
GSM1094153_tet1CDmut.genes.results.txt.gz 334.4 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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