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Whole transcriptome analysis of Sox17.Epi and Endo cells in mouse embryos

ABSTRACT: Whole transcriptome analysis of Sox17.Epi and Endo cells in mouse embryos

PROVIDER: PRJEB2895 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	ERR338546.fastq.gz	Fastqsanger.gz
	ERR338547.fastq.gz	Fastqsanger.gz
	ERR338548.fastq.gz	Fastqsanger.gz
	ERR338549.fastq.gz	Fastqsanger.gz
	ERR338550.fastq.gz	Fastqsanger.gz

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Whole transcriptome analysis of Sox17.Epi and Endo cells in mouse embryos

Project description:This experiment has been done to understand the dynamics of gene expression in Sox17.Epi and Endo cells using multiplex RNA-Seq technology. Sox17.Epi (Sox17^GFP+EpCAM+) and Sox17.Endo (Sox17^GFP+EpCAM-) cells were isolated by FACS from E9.5 mouse embryos. The spatial comparison between Sox17.Epi versus Sox17.Endo provides insight into which genes are differentially of specifically expressed in two populations.

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Project description:To determine the role of specific cis-regulatory elements within the Sox17 endoderm-preferential TSS2 promoter, we generated Sox17∆50 mutant animals and surveyed how this mutation altered Sox17 expression. EPCAM+/CXCR4+ endodermal cells were isolated from E10.5 Sox17∆50/∆50 and Sox17+/+ embryos (n = 1 of each genotype). Posterior foregut and midgut regions of embryos were dissected by removal of embryonic head, heart, tail, limb buds, posterior and dorsal body trunk. Sox17+/+ and Sox17Δ50/Δ50 cell samples were labelled with barcodes from 3'CellPlex Kit (10X Genomics) and subsequently pooled together for single isolation, library preparation and sequencing.

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Project description:To determine the role of specific cis-regulatory elements within the Sox17 endoderm-preferential TSS2 promoter, we generated Sox17∆50 mutant animals, crossed them to a Sox17GFPCre (a Sox17 null allele), and surveyed how this mutation affected Sox17 expression. Livers were isolated from E12.5 Sox17∆50/GFPCRe compound heterozygous and Sox17+/+ embryos (n = 4 of each genotype), RNA isolated, and bulk RNA-Seq performed.

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Expression data from wild type and Sox17 heterozygous mutant uteri in early pregnancy

Project description:SOX17 activity in the uterine epithelium is essential for the implantation of mouse embryos. Previously, we demonstrated that female Sox17-heterozygous mutant mice are subfertile, and two active copies of Sox17 are required for the proper implantation of mouse embryos. To understand which implantation step is most sensitive to the Sox17 gene dosage, we comprehensively investigated the RNA transcriptomes of Sox17-heterozygous mutant mice.

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Project description:Transcription profiling by high throughput sequencing of Sox17.Epi and Endo cells from mouse embryos

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Expression data from livers in wildtype and Sox17+/-mice at 17dpc

Project description:The onset of the liver inflamentation in the Sox17+/- embryos. The expression of Cxcl10, Cxcl2, Cxcl1 and stress-induced heat shock protein Hspa1a and Hspa1b were elevated in Sox17+/- livers at 17dpc, as compared with the wildtype livers. Total RNAs from liver tissues of wildtype and Sox17+/- mice at 17dpc were subjected to microarray analyses. Two biological replicates of each genotype were analyzed.

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