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Series GSE86400 Query DataSets for GSE86400
Status Public on Oct 11, 2016
Title Transcriptome of mouse preimplantation development [C57BL/6 x Cast; WT]
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Summary Purpose: The goals of this study are to establish a dynamic roadmap of imprinted X chromosome inactivation and the role of Xist by elucidation of the transcriptome of Xist KO embryos during mouse preimplantation development
Methods: mRNA profiles of the preimplantation embryos WT and KO for Xist were elucidated by RNA-seq at various stages. Trophoblasts isolated from blastocyst outgrowths were also included. The sequence reads that samples where gender could be determined and that passed quality filters were analyzed at the level of autosomes, X chromosome as well as single genes. Effects of genetic background on the kinetics of iXCI was evaluated by RNA-seq on E3.5 embryos with a hybrid C57BL/6 x Cast background.
Results: Female embryos fail to silence the X chromosome at late preimplantation development. General autosomal gene expression is not affected in embryos lacking Xist.
Conclusions: Xist is crucial for iXCI. In preimplantation embryos the main in vivo function of Xist is to regulate iXCI in females. Genetic background does not significantly influence kinetics of iXCI.
Overall design Global mRNA profiles of single preimplantation embryos were generated by deep sequencing.
Contributor(s) Ingolf B
Citation(s) 27642011
Submission date Sep 02, 2016
Last update date May 15, 2019
Contact name Ingolf Bach
Organization name University of Massachusetts Medical School
Department Molecular, Cell and Cancer Biology
Street address 364 Plantation St
City Worcester
State/province MA
ZIP/Postal code 01605
Country USA
Platforms (1)
GPL19057 Illumina NextSeq 500 (Mus musculus)
Samples (8)
GSM2301568 C57BL/6 x Cast female, repeat 1
GSM2301569 C57BL/6 x Cast male, repeat 1
GSM2301570 C57BL/6 x Cast male, repeat 2
This SubSeries is part of SuperSeries:
GSE71442 Transcriptome of mouse preimplantation development
BioProject PRJNA341689
SRA SRP084330

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Supplementary file Size Download File type/resource
GSE86400_cast.counts.txt.gz 246.0 Kb (ftp)(http) TXT
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Raw data are available in SRA
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