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Sample GSM838743 Query DataSets for GSM838743
Status Public on Jun 18, 2012
Title Oocyte litter 1
Sample type SRA
Source name oocyte
Organism Mus musculus
Characteristics genetic background: mixed strain oocytes
cell type: oocyte
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 Oocytes were collected by E0.5 and lysed in Prelude Direct Lysis Buffer
Growth protocol Females were superovulated using standard conditions
Extracted molecule total RNA
Extraction protocol Nugen Ovation RNA-Seq kit(for amplifying RNA) followed by 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 Genome Analyzer II
Description RNA amplified using SPIA
Data processing Oocyte_1.wig; genome build: mm9
Bowtie alignments, allowing 3 mismatches per read, allowing up to 20 alignments per read
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
Platform ID GPL9250
Series (2)
GSE33922 RNA-Seq from wt oocytes
GSE33923 2C::tomato ES cells, 2-cell embryos and wild type oocytes
SRA SRX109434
BioSample SAMN00760873

Supplementary file Size Download File type/resource
GSM838743_Oocyte_1.bed.gz 52.6 Mb (ftp)(http) BED
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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