Differentiation analysis of Mouse Posterior Neural tube
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PROVIDER: PRJNA436907 | ENA |
REPOSITORIES: ENA
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Project description:Background: Spina bifida is one of the most common and life threatening human congenital defects. Despite considerable effort and investigations, the causes and mechanisms underlying this malformation remain poorly characterized. In order to better understand pathogenesis of this abnormality, we conducted a microarray study to compare gene expression profiles between two mouse models, CLX-Splotch and Fkbp8Gt(neo), that both have spina bifida. Results: To compare the gene expression profiles in these two mouse models we performed microarray analysis using Mouse Whole Genome CodeLink Bioarray. We compared the level of gene expression between wildtype and homozygous mutant embryos in Fkbp8Gt(neo) and CXL-Splotch separately. A total of 54 genes were determined to be differentially expressed (25 down, 29 up) in the posterior neural tube of Fkbp8Gt(neo) mice embryos; while 73 genes were differentially expressed (56 down, 17 up) in the CXL-Splotch mouse. The only two genes that showed decreased expression in both mutants were v-ski sarcoma viral oncogene homolog (Ski) and Zic1, a transcription factor member of the zinc finger family. Interestingly, when Gene Ontology (GO) analysis was performed on all of the differentially expressed genes, there was a striking enrichment of genes associated with mesoderm development and central nervous system development in CLX-Splotch, whereas in Fkbp8Gt(neo) genes involved in dorsal/ventral pattern formation, cell fate specification, and positive regulation of cell differentiation were distinguished. This SuperSeries is composed of the following subset Series: GSE25974: Gene expression-based analysis of neural tube closure for the posterior neuropore of Fkbp8 embryos at E9.5 GSE25975: Gene expression-based analysis of neural tube closure for the posterior neuropore of Splotch embryos at E9.5
2010-12-10 | E-GEOD-25983 | biostudies-arrayexpress
Project description:Self-elongating neural tube organoids recapitulate key aspects of the morphology, anterior-posterior patterning, neural crest emergence and neural differentiation of mouse embryo in vivo by self-organization. We used single-cell RNA sequencing (scRNA-seq) to analyse the cell types and to reveal the sequence of transcriptional events in the emergence of neural crest cells and neural differentiation.
2022-10-12 | GSE214996 | GEO
Project description:Three wildtype and three nullizygous embryonic posterior neural tube tissues were collected at embryonic day 9.5 and the gene expression patterns were profiled on CodeLink Mouse Whole Genome Bioarrays.
2010-12-10 | GSE25975 | GEO
Project description:Three wildtype and three nullizygous embryonic posterior neural tube tissues were collected at embryonic day 9.5 and the gene expression patterns were profiled on CodeLink Mouse Whole Genome Bioarrays.
2010-12-10 | GSE25974 | GEO
Project description:Three wildtype and three nullizygous embryonic posterior neural tube tissues were collected at embryonic day 9.5 and the gene expression patterns were profiled on CodeLink Mouse Whole Genome Bioarrays. Wild type versus nullizygous Splotch embryonic tissues were compared individually and as separate groups to determine classifiers and differences in expression due to the nullizygous mutation.
2010-12-10 | E-GEOD-25975 | biostudies-arrayexpress
Project description:Three wildtype and three nullizygous embryonic posterior neural tube tissues were collected at embryonic day 9.5 and the gene expression patterns were profiled on CodeLink Mouse Whole Genome Bioarrays. Wild type versus nullizygous Fkbp8 embryonic tissues were compared individually and as separate groups to determine classifiers and differences in expression due to the nullizygous mutation.
2010-12-10 | E-GEOD-25974 | biostudies-arrayexpress
Project description:Maternal diabetes is a teratogen that can lead to neural tube closure defects in the offspring. We therefore sought to compare gene expression profiles at the site of neural tube closure between stage-matched embryos from normal dams, and embryos from diabetic dams. Neurulation-stage mouse embryos at 8.5 days of gestation were used to prepare neural tissue at the anterior aspect of neural tube closure site 1. Tissue was procured from the open neural tube immediately anterior of the closure site, and from the closed neural tube immediately posterior to the closure site by laser microdissection. For each sample, 10 sections were pooled, total RNA was extracted, and 7 ng of total RNA were used for expression profiling by Tag sequencing using an Applied Biosystems SolidSAGE kit for library construction, and an AB SOLiD 5500 XL instrument for sequencing. Sequence reads were mapped to RefSeq RNA, and count data per gene were obtained using a modified version of the Applied Biosystems SOLiDâ?¢ SAGEâ?¢ Analysis Software. diabetic dam - closed neural tube // diabetic dam - open neural tube // normal dam - closed neural tube // normal dam - open neural tube
2016-10-24 | E-GEOD-41876 | biostudies-arrayexpress
Project description:Maternal diabetes is a teratogen that can lead to neural tube closure defects in the offspring. We therefore sought to compare gene expression profiles at the site of neural tube closure between stage-matched embryos from normal dams, and embryos from diabetic dams. Neurulation-stage mouse embryos at 8.5 days of gestation were used to prepare neural tissue at the anterior aspect of neural tube closure site 1. Tissue was procured from the open neural tube immediately anterior of the closure site, and from the closed neural tube immediately posterior to the closure site by laser microdissection. For each sample, 10 sections were pooled, total RNA was extracted, and 7 ng of total RNA were used for expression profiling by Tag sequencing using an Applied Biosystems SolidSAGE kit for library construction, and an AB SOLiD 5500 XL instrument for sequencing. Sequence reads were mapped to RefSeq RNA, and count data per gene were obtained using a modified version of the Applied Biosystems SOLiD™ SAGE™ Analysis Software.
2016-10-24 | GSE41876 | GEO
Project description:Gene expression-based analysis of neural tube closure for the posterior neuropore
| PRJNA135409 | ENA