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Sample GSM2589887 Query DataSets for GSM2589887
Status Public on Sep 19, 2017
Title RNA_Rif1KD_rep2
Sample type SRA
 
Source name mouse ES cell line E14Tg2A
Organism Mus musculus
Characteristics cell type: mouse embryonic stem cell line
cell line: E14Tg2A
Treatment protocol Cells were infected with lenti-viral based shNT (control) or shRif1(Rif1 KD), cells were harvested 4 days after infection.
Growth protocol Embryonic stem cells were cultured at 37°C, 5% CO2, in DMEM (Sigma) with 10% foetal bovine serum and leukemia inhibitory factor (LIF).
Extracted molecule total RNA
Extraction protocol Cells were harvested and total RNA was extracted by Thermo RNA kit
The sequencing library was generated by Truseq RNA sample preparation kit according to the instruction
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina NextSeq 500
 
Description Gene expression 4 days after transfection
Data processing Aligned with TopHat2 version 2.0.4 with the following parameters: --b2-sensitive --no-coverage-search -g 10
FPKM measurements obtained using CuffLinks version 2.0.2
Genome_build: mm9
Supplementary_files_format_and_content: FPKM: 1st column = RefSeq ID, 2nd column = fragments per kilobase of exon per million mapped reads (FPKM value)
 
Submission date Apr 26, 2017
Last update date May 15, 2019
Contact name Pishun Li
E-mail(s) [email protected]
Phone 9193164745
Organization name National Institute of Environmental Health Sciences
Department ESCBL
Lab stem cell
Street address 111 T.W. Alexander Drive
City Research Triangle Park
State/province NC
ZIP/Postal code 27709
Country USA
 
Platform ID GPL19057
Series (2)
GSE98255 Rif1 Promotes a Repressive Chromatin State to Safeguard Against Endogenous Retrovirus Activation [RNA-seq]
GSE98256 Rif1 Promotes a Repressive Chromatin State to Safeguard Against Endogenous Retrovirus Activation
Relations
BioSample SAMN06840407
SRA SRX2766223

Supplementary file Size Download File type/resource
GSM2589887_RNA_Rif1KD_rep2_FPKM.txt.gz 235.0 Kb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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