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Sample GSM1933940 Query DataSets for GSM1933940
Status Public on Jun 15, 2016
Title RNA-Seq 8-cell KD control rep2
Sample type SRA
 
Source name Preimplantation embryo
Organism Mus musculus
Characteristics strain: C57BL/6N x DBA/2N
developmental stage: 8-cell
Growth protocol Knockdown siRNA injected embryos were cultured in CZB medium containing glutamine at 37℃ under 5% CO2 in air.
Extracted molecule polyA RNA
Extraction protocol After removing the zona pellucida, embryonic cells were washed with PBS and incubated in lysis buffer.
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 nr5a2_8cell_KD_fpkm.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
Genome_build: mm9
Supplementary_files_format_and_content: fpkm
 
Submission date Nov 09, 2015
Last update date May 15, 2019
Contact name Wei Xie
E-mail(s) xiewei121@tsinghua.edu.cn
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)
Relations
BioSample SAMN04252374
SRA SRX1424868

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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