GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
Series GSE149372 Query DataSets for GSE149372
Status Public on Feb 15, 2021
Title Ex utero Mouse Embryogenesis from Pre-Gastrulation to Late-Organogenesis
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Summary Establishment of the mammalian body plan occurs shortly after the embryo implants into the maternal uterus, and our understanding of post-implantation developmental processes remains limited. While methods for in vitro culture of pre- and peri-implantation mouse embryos are routinely utilized, approaches for robust culture of post-implantation embryos from egg cylinder stages until advanced organogenesis remain to be established. We develop herein highly stable ex utero post-implantation mouse embryo culture platforms, that enable appropriate development of embryos before gastrulation (E5.5) until the hind limb formation stage (E11). Late gastrulating embryos (E7.5) are grown in 3D rotating bottles settings, while extended culture from pre-gastrulation stages (E5.5 or E6.5) requires a combination of novel static and rotating bottle culture protocols. Histological, molecular, and single cell RNA-seq analysis validate that the ex utero developed embryos recapitulate precisely in utero development. This culture system is amenable to introducing a variety of embryonic perturbations and micro-manipulations that can be followed ex utero for up to 6 days. Establishment of a system to robustly grow normal mouse embryos ex utero from pre-gastrulation to advanced organogenesis represents a valuable tool to investigate post-implantation embryogenesis, eliminating the uterine barrier to mechanistically interrogate morphogenesis and tissue specification in mammals.
Overall design Mouse embryos at E6.5 days post fertilization were cultured ex utero 2 days (equivalent to E8.5) and 4 days (equivalent to E10.5) and analyzed by single cell RNA seq. In utero developed embryos at matched stages were sequenced as control
RNA-seq was measured in vitro mouse ESCs and EpiSCs
Contributor(s) Aguilera-Castrejon A, Sheban D, Shani T, Mousa A, Novershtern N, Hanna JH
Citation(s) 33731940
Submission date Apr 26, 2020
Last update date Jul 21, 2022
Contact name Noa Novershtern
Organization name Weizmann Institute of Science
Department Molecular Genetics
Street address Weizmann Institute
City Rehovot
ZIP/Postal code 7610001
Country Israel
Platforms (2)
GPL19057 Illumina NextSeq 500 (Mus musculus)
GPL24247 Illumina NovaSeq 6000 (Mus musculus)
Samples (20)
GSM4498724 mouse E10.5 embryo, ex utero, replicate 1 [ExUt_E105_1]
GSM4498725 mouse E10.5 embryo, ex utero, replicate 2 [ExUt_E105_2]
GSM4498726 mouse E10.5 embryo, ex utero, replicate 3 [ExUt_E105_3]
BioProject PRJNA628518
SRA SRP258592

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE149372_GSM5068636-GSM5068641_scRNA.MetaData.105.csv.gz 1.1 Mb (ftp)(http) CSV
GSE149372_GSM5068636-GSM5068641_scRNA.integrated.scaled.assay105.csv.gz 708.3 Mb (ftp)(http) CSV
GSE149372_GSM5068636-GSM5068641_scRNA.normalized.assay105.csv.gz 843.9 Mb (ftp)(http) CSV
GSE149372_RAW.tar 390.0 Kb (http)(custom) TAR (of TXT)
GSE149372_scRNA.MetaData.105.csv.gz 754.6 Kb (ftp)(http) CSV
GSE149372_scRNA.MetaData.85.csv.gz 219.7 Kb (ftp)(http) CSV
GSE149372_scRNA.integrated.scaled.assay105.csv.gz 125.6 Mb (ftp)(http) CSV
GSE149372_scRNA.integrated.scaled.assay85.csv.gz 55.3 Mb (ftp)(http) CSV
GSE149372_scRNA.normalized.assay105.csv.gz 539.0 Mb (ftp)(http) CSV
GSE149372_scRNA.normalized.assay85.csv.gz 193.2 Mb (ftp)(http) CSV
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap