RNAseq of Murine Gastrulation
Single Cell Gene Expression Atlas
Introduction
Gastrulation is a critical period of embryonic development, beginning with the formation of the primitive streak at E6.5 and culminating in the formation of the canonical three germ layers. Single cell unbiased whole transcriptome RNAseq analysis was performed in mouse embryos at 4 timepoints spanning gastrulation: E6.5; E7.0; E7.5 & E7.75.
In total 33 mouse embryos were processed supplying 1205 cells that passed quality control. 501 cells from seven E6.5 whole embryos were harvested by generating a single cell suspension from the distal end of the egg cylinder. Single cell suspensions generated from larger older embryos acquired at E7.0 (138 cells, 3 embryos), E7.5 (259 cells, 12 embryos) and E7.75 (307 cells, 11 embryos) were FACS sorted for Flk1 or CD41.
Data
Download matrix of gene counts here. Metadata is available here.
Data for the Tal1 experiment is available separately. Download matrix of gene counts here. Metadata is available here.
Entire dataset
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E6.5 epiblast dataset
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E7.0-E7.75 dataset
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