NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM4010562 Query DataSets for GSM4010562
Status Public on Oct 28, 2020
Title ICM_mRNA_rep2
Sample type SRA
 
Source name Preimplantation embryo
Organism Mus musculus
Characteristics tissue: Preimplantation embryo
genotype: wild-type
developmental stage: ICM
Extracted molecule polyA RNA
Extraction protocol 8-week-old female mice were intraperitoneally injected with PMSG and hCG. Embryos were harvested in M2 medium 98 h after hCG
The Smart-seq2 libraries of ICM were prepared as previously described (Picelli et al., 2014). ICM were lysed in lysis buffer containing RNase inhibitor according to the user manual. The library was quantified using Qubit and Agilent 2100 before being subjected to sequencing.
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model HiSeq X Ten
 
Data processing Basecalls performed using CASAVA version 1.8
RNA-Seq reads were aligned to the mm9 genome assembly using tophat 2.1.1, transcript abundance (FPKM) were calculated based on Reflat annotation using cufflinks version 2.1.1
Genome_build: mm9
 
Submission date Aug 06, 2019
Last update date Oct 28, 2020
Contact name Bofeng Liu
E-mail(s) lbf12thu@gmail.com
Organization name Tsinghua University
Department School of Life Science
Lab Xie Wei Lab
Street address Haidian District
City Beijing
ZIP/Postal code 100084
Country China
 
Platform ID GPL21273
Series (1)
GSE135457 The landscape of RNA Pol II binding reveals a step-wise transition during ZGA
Relations
BioSample SAMN12504614
SRA SRX6660229

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

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap