Project description:Primordial germ cell mRNA profiles from cells microdissected from e6.5, e7.5 and e8.5 embryos, e7.5 somatic neighbours and Blimp1-KO mice were generated by single cell library construction and sequencing in duplicate using Applied Biosystems SOLiD sequencer. Single cell library construction is described in: Tang f. et. al, Nature Protocols (2010), Vol. 5, p.516.

2013-07-01 | E-MTAB-1178 | biostudies-arrayexpress

In vivo RNA-seq for for Hh Dependent genes in E7.5 mesoderm

Project description:Mesp1-Cre+ cells from E7.5 mouse embryos (from the cross Mesp1-Cre/+ x Rosa26-Gli3R-IRES-YFP/tdTomato) were sorted by FACS where wild type (tdTomato-expressing) and mutant (Gli3R + YFP co-expressing) cells were collected separately from single litters.

2020-05-28 | GSE147868 | GEO

Single-cell RNA-seq of mouse embryos E6.5 and E7.5. Second batch.

Project description:Formation of the three primary germ layers during gastrulation is an essential step in the establishment of the vertebrate body plan. Recent studies employing single cell RNA-sequencing have identified major transcriptional changes associated with germ layer specification. Global epigenetic reprogramming accompanies these changes, but the role of the epigenome in regulating early cell fate choice remains unresolved, and the coordination between different epigenetic layers is unclear. Here we describe the first single cell triple-omics map of chromatin accessibility, DNA methylation and RNA expression during the exit from pluripotency and the onset of gastrulation in mouse embryos. We find dynamic dependencies between the different molecular layers, with evidence for distinct modes of epigenetic regulation. The initial exit from pluripotency coincides with the establishment of a global repressive epigenetic landscape, followed by the emergence of local lineage-specific epigenetic patterns during gastrulation. Notably, cells committed to mesoderm and endoderm undergo widespread coordinated epigenetic rearrangements, driven by loss of methylation in enhancer marks and a concomitant increase of chromatin accessibility. In striking contrast, the epigenetic landscape of ectodermal cells is already established in the early epiblast. Hence, regulatory elements associated with each germ layer are either epigenetically primed or epigenetically remodelled prior to overt cell fate decisions during gastrulation, providing the molecular logic for a hierarchical emergence of the primary germ layers. Useful links: Parsed data: (ftp://ftp.ebi.ac.uk/pub/databases/scnmt_gastrulation) Github repository: (https://github.com/rargelaguet/scnmt_gastrulation)

2019-09-30 | GSE133725 | GEO

Single-cell RNA-seq of mouse embryos E4.5 to E7.5. First batch.

2019-09-30 | GSE121650 | GEO

Gene expression profile of cells from Hey2 enhancer-LacZ transgenic (Tg) mouse embryos at embryonic day (E) 7.5.

Project description:We used single cell RNA sequencing (scRNA-seq) to analyze cells that activate the Hey2 enhancer in mouse embryos at E7.5.

2023-09-07 | GSE227506 | GEO

Single cell RNA seq of mouse embryos from E7.0, E7.25 and E7.5

Project description:During mouse gastrulation, the formation of germ layers proceeds concurrently with the transition pluripotency state and the allocation of the multipotent epiblast cells to the germ layer derivatives. Lineage analysis and fate-mapping studies have revealed that groups of cells in different regions of the epiblast and the primitive streak of the gastrulating embryo are allocated to separate progenitors of the ectoderm, mesoderm and endoderm lineages three germ layers with descendants of each progenitor contributing to specific types of germ layer derivatives. Spatiotemporal transcriptomic analysis of the epiblast cell population has inferred that besides the allocation of the epiblast cells to progenitors of germ layers, a population of putative mesendoderm progenitors may be present in the gastrulating embryos.

2024-11-30 | GSE278981 | GEO

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