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Sample GSM3494175 Query DataSets for GSM3494175
Status Public on May 01, 2019
Title RNA_ST_8C_Setd2_KO_RNA_rep2
Sample type SRA
Source name embryo
Organism Mus musculus
Characteristics tissue: embryo
developmental stage: 8C
genotype: Setd2-/-
Treatment protocol 8-week-old control and Setd2mNull female mice were superovulated by PMSG (5 IU) and hCG (5 IU) injection at 48 hours apart. Denuded oocytes were washed in M2 and incubated in normal M16 medium. Transferring of spindle-chromosome complex of Setd2mNull (or control) donor oocyte and enucleation of control (or Setd2mNull) recipient oocyte were done with a piezo-driven actuator. Then donor spindle-chromosome complex was gently aspirated to a pipette, exposed to the HVJ-E (CosmoBio), and transferred to an enucleated recipient oocyte. About 15 minutes later, reconstructed oocytes were fertilized by intracytoplasmic sperm injection (ICSI). Then reconstructed zygotes were incubated in M16 medium to 8-cell stage.
Extracted molecule total RNA
Extraction protocol The RNA extraction follows smart-seq2 protocol
The RNA-seq libraries were generated following the Smart-seq2 protocol with minor modification (Picelli et al., 2014).
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model HiSeq X Ten
Description processed data file:
Data processing RNA-seq datasets were mapped to the mouse mm9 reference genome by Tophat 2.0.11. Gene expression was then calculated according to refFlat database by cufflinks 2.0.2.
Genome_build: mm9
Supplementary_files_format_and_content: The RNA FPKM txt file contains FPKM value for each sample.
Submission date Nov 27, 2018
Last update date May 01, 2019
Contact name Wei Xie
Organization name Tsinghua University
Department School of Life Science
Street address Haidian District
City Beijing
ZIP/Postal code 100084
Country China
Platform ID GPL21273
Series (2)
GSE112832 SETD2 regulates the maternal epigenome, genomic imprinting and embryonic development [RNA-seq]
GSE112835 SETD2 regulates the maternal epigenome, genomic imprinting and embryonic development
BioSample SAMN10490846
SRA SRX5070520

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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