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Sample GSM1625873 Query DataSets for GSM1625873
Status Public on Jun 15, 2016
Title RNA-Seq mESC rep1
Sample type SRA
Source name Embryonic stem cell
Organism Mus musculus
Characteristics strain: R1
developmental stage: Embryonic stem cell
Growth protocol mESCs were cultured routinely in LIF and serum medium.
Extracted molecule polyA RNA
Extraction protocol RNA-Seq libraries were prepared using Smart-Seq2 protocol with slightly modification
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 1500
Description FPKM_stage.txt.gz
Data processing Basecalls performed using CASAVA version 1.8
RNA-Seq reads were aligned to the mm9 genome assembly using STAR version 2.4.0, then replicates were merged together, and transcript abundance (FPKM) were calculated based on Refseq annotation using cufflinks version 2.2.1
Genome_build: mm9
Supplementary_files_format_and_content: The wig files counted by the number of reads falling into 100bp bin in the genome. Tab-delimited text files include RPKM values for each sample
Submission date Mar 05, 2015
Last update date May 15, 2019
Contact name Wei Xie
Organization name Tsinghua University
Street address zhongguancun beidajie
City Beijing
ZIP/Postal code 100086
Country China
Platform ID GPL18480
Series (2)
GSE66390 The landscape of accessible chromatin in mammalian pre-implantation embryos
GSE66582 The landscape of accessible chromatin in mammalian pre-implantation embryos (RNA-Seq)
Reanalyzed by GSE123012
BioSample SAMN03389630
SRA SRX902562

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

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