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SRX4563113: GSM3336355: WT-rep2-D8; Mus musculus; RNA-Seq
1 ILLUMINA (Illumina NovaSeq 6000) run: 14.7M spots, 4.4G bases, 1.3Gb downloads

Submitted by: NCBI (GEO)
Study: Spatial-temporal epigenetic landscape of mouse gastrula
show Abstracthide Abstract
Regionalized lineage progenitor cells emerged from the onset of gastrulation would facilitate mouse embryonic patterning and build a blueprint for future development. However, the molecular mechanism especially the epigentic mechanism underlying the formation and development of lineage restricted cells has not been fully unveiled. Here,we present a comprehensive landscape of H3K4me3, H3K4me1, H3K9ac, H3K27ac, H3K27me3 and DNA methylation pattern in mouse embryo from pre-streak stage to late-streak stage, and fully analyze the epigenetic mechansim driving the embryonic patterning of mouse gastrula Overall design: To obtain a comprehensive epigenetic landscape of mouse gastrulation and the corresponding lineage development process, we have dissected mouse gastrula from pre-steak stage (E6.5) to late streak stage (E7.5)19 into extra-embryonic (ExE) and embryonic parts, and embryonic parts of E7.0 and E7.5 embryos will be further divided into sub-regions (A, P, AM) due to the emergence of embryo asymmetry.
Sample: WT-rep2-D8
SAMN09847940 • SRS3679462 • All experiments • All runs
Organism: Mus musculus
Library:
Instrument: Illumina NovaSeq 6000
Strategy: RNA-Seq
Source: TRANSCRIPTOMIC
Selection: cDNA
Layout: PAIRED
Construction protocol: RNA from embryo samples were extracted by 5M GuSCN (Invitrogen, # 20012-043), then RNA was precipitated by ethanol with the help of RNA carrier; genomic DNA from embryo samples were separated and extracted by modified microChIPseq; RNA from in vitro culture bulk cells were extracted by using Trizol and precipitated by isopropanol. Libraries of RNA samole were generated by using illumina Nextera XT DNA sample preparation kit; libraries of genomic DNA were construted by using NEBNext Ultra DNA Library Prep Kit for Illumina (NEB #7370L); libraries of bulk RNA seq were prepared by using NEBNext RNAseq library kit.
Experiment attributes:
GEO Accession: GSM3336355
Links:
Runs: 1 run, 14.7M spots, 4.4G bases, 1.3Gb
Run# of Spots# of BasesSizePublished
SRR770584014,662,6584.4G1.3Gb2019-10-09

ID:
6174475

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