Status
Public on Jun 18, 2012
Title
2C litter 3
Sample type
SRA
Source name
2C stage embryos
Characteristics
genetic background: mixed strain with C57/Bl6J
developmental stage: 2-cell embryo
tissue: embryo
crosses: LSD1 FL/FL mice (From Wang et al, Nature 446, 2007 ) were crossed with ZP3::Cre mice (Jax labs strain 003651) and backcrossed again to generate LSD1 FL/FL, ZP3Cre+ and - mice. FOr this study, only LSD1 FL/FL, ZP3::Cre negative females were used to produce oocytes. For 2C embryos, these females were crossed with wild type CB6 males
Treatment protocol
Litters of 2C embryos were collected at E1.5 and lysed in Prelude direct lysis buffer
Growth protocol
Mixed strain female mice were fertilized with C57/Bl6J mice
Extracted molecule
total RNA
Extraction protocol
Nugen Ovation RNA-Seq kit VII (for amplifying RNA) followed by Covaris fragmentation of cDNA, and library construction using Illumina mRNA sample prep kit starting with end repair
Library strategy
RNA-Seq
Library source
transcriptomic
Library selection
cDNA
Instrument model
Illumina HiSeq 2000
Description
RNA amplified using SPIA
Data processing
2C_3.wig; genome build: mm9
Bowtie alignments, 3 mismatches per alignment, up to 20 alignments per read, for comparison with oocytes single-end (left side reads) trimmed on 3' end to 72bp
Submission date
Nov 23, 2011
Last update date
May 15, 2019
Contact name
Todd Macfarlan
Organization name
The Salk Institute
Street address
10010 North Torrey Pines
City
La Jolla
State/province
CA
ZIP/Postal code
92037
Country
USA
Series (2)
GSE33921
RNA-Seq from two-cell (2C) stage embryos
GSE33923
2C::tomato ES cells, 2-cell embryos and wild type oocytes
Relations
Supplementary file
Size
Download
File type/resource
Raw data are available in SRA
Processed data provided as supplementary file