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Sample GSM1173357 Query DataSets for GSM1173357
Status Public on Jul 22, 2013
Title Oct4-GFP negative cells1 [GFP- cells1]
Sample type SRA
Source name Mouse embryonic fibroblasts
Organism Mus musculus
Characteristics developmental stage: embryo
cell type: fibroblast
strain: C57xICR
chemical treatment condition: VC6TF
Treatment protocol GFP- cells, GFP+ clusters and GFP+ colonies were picked up and collected for RNA isolation.
Growth protocol MEFs were cultured in DMEM/High Glucose (Hyclone) containing 10% fetal bovine serum (Invitrogen). Mouse ESCs (R1 and TT2) and CiPSCs were maintained on feeder layers of mitomycin C-treated MEFs in ESC culture medium.
Extracted molecule total RNA
Extraction protocol Total RNA extracted by QIAGEN Rneasy Kit following manufacturer's instructions.
RNA libraries were prepared and sequenced following Illumina protocol
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 2000
Description GFP- cells1
Data processing Tophat 1.3.0. to align the clean reads to the mm9 RefSeq, and gene expression was analyzed by the RPKM method.
FDR < 0.01 and the absolute ratio of log2 > 1 as the threshold for the differential expresion of genes.
Genome_build: MGSCv37
Supplementary_files_format_and_content: Tab-delimited text file. RPKM values and GeneIDs.
Submission date Jun 24, 2013
Last update date May 15, 2019
Contact name chun liu
Phone 13621043040
Organization name Peking University
Street address beijing
City beijing
State/province beijing
ZIP/Postal code 100871
Country China
Platform ID GPL13112
Series (2)
GSE48243 Inducing pluripotency from mouse somatic cells by small-molecule compounds
GSE48252 Inducing pluripotency from mouse somatic cells by small-molecule compounds [RNA-Seq]
BioSample SAMN02212596
SRA SRX314748

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

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