Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Gene expression changes in the supraorbital cranial mesenchyme after beta-catenin deletion in vivo

ABSTRACT: Goal of this study was to examine gene expression changes upon conditional deletion of beta-catenin at e13.5 cranial mesenchyme.

ORGANISM(S): Mus musculus

PROVIDER: GSE96871 | GEO | 2019/03/01

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

H3K27me3 enrichment in the supraorbital cranial mesenchyme with ectoderm upon the deletion of β-catenin

Project description:H3K27me3 enrichment in the supraorbital cranial mesenchyme with ectoderm upon the deletion of β-catenin

2019-03-01 | GSE96604 | GEO

Supraorbital cranial mesenchyme with ectoderm upon the deletion of β-catenin

Project description:Supraorbital cranial mesenchyme with ectoderm upon the deletion of β-catenin

| PRJNA379961 | ENA

Nonclassical beta catenin signaling regulate skeletal cell fate determination

Project description:To rigorously examine the role of b-catenin dependent transcription, we created mice deficient for the transcriptional output of beta-catenin in skeletal mesenchyme (bcat-dTF-Dermo1-cKO) and compare the transcriptional profiles to that of the beta-catenin conditional KO mice in skeletal mesenchyme (bcat-Dermo1-cKO).

2022-12-07 | GSE206939 | GEO

Gene expression changes in dorsal dermal fibroblasts after beta-catenin deletion in vivo

Project description:Goal of this study was to examine gene expression changes upon conditional deletion of beta-catenin at E10.5 in dermal fibroblasts. Method: Skin tissues were treated in 0/25% trypsin for 15 min at 37 degrees C to obtain single cells for FACS sorting and collected in RNA later. RNA was extracted with Karcturus pico pure kit. The RT and amplification was done using Nugen's ovation RNA-seq system V2. Libraries for sequencing were prepared with Illumina TruSeq kit. Transcriptome of FACS sorted E13.5 Engrailed1; RRYFP lineage-marked dorsal dermal fibroblasts was generated next-gen sequencing, in triplicate, using Illumina HiSeq machine. The sequence reads that passed quality filters were analyzed by TopHat followed by Cufflinks. qRT–PCR validation was performed using TaqMan and SYBR Green assays Results: We mapped about 33-49 million sequence reads per sample and obtained 76-79% of uniquely mapped percentage. We assembled the reads to the mouse ref genome (build mm10).

2016-06-16 | GSE75944 | GEO

Supraorbital cranial mesenchyme with ectoderm upon the deletion of β-catenin

Project description:This SuperSeries is composed of the SubSeries listed below.

2019-03-01 | GSE96872 | GEO

Transcriptional profiling to compare gene expression in supraorbital mesenchyme (SOM) and early migration mesenchyme (EMM) of wild type mouse embryos

Project description:During embryonic development, the mesenchyme surrounding the brain (cranial mesenchyme) gives rise to several structures such as the meninges, calvaria, and the dermis of the scalp. It has been known that the two regions within the cranial mesenchyme, namely, SOM on the basolateral side and EMM on the apical side of the head, have different developmental fates. However, the molecular genetic basis underlying this difference had been unclear. To address this question, we sought to identify genes differentially expressed between EMM and SOM. Through RNAseq, we identified 1095 genes with higher expression in EMM than in SOM, and 398 genes with higher expression in SOM than in EMM (fold change>2, p<0.001, base mean count>50).

2019-08-03 | GSE128379 | GEO

Expression data from mesodermal Tbx1-knockout otic vesicles and periotic mesenchyme at E11.5

Project description:The T-box transcription factor Tbx1 is expressed in the otic vesicle and surrounding periotic mesenchyme during inner ear development. Mesenchymal Tbx1 is essential for inner ear development, with conditional mutants displaying defects in both auditory and vestibular systems. We have previously identified reduced expression of retinoic acid metabolic genes in the periotic mesenchyme of mesoderm conditional Tbx1 mutants, using the T-Cre mouse line, implicating retinoic acid in mesenchymal-epithelial signaling downstream of Tbx1 in the periotic mesenchyme. In order to identify downstream effectors of mesenchymal-epithelial signaling downstream of mesenchymal Tbx1, we have utilized a gene profiling approach comparing embryonic day 11.5 otic vesicle and surrounding periotic mesenchyme from T-Cre-mediated conditional Tbx1 mutants (Mest-KO) and conditional heterozygous control litter mates (control). This data was used in conjunction with OV-only data (GSE34064) to identify expression changes within the periotic mesenchyme. E11.5 T-Cre-mediated conditional Tbx1 mutants (Mest-KO) and control (T-Cre conditional Tbx1 heterozygotes) embryos were microdissected to isolate the otic vesicle and surrounding periotic mesenchyme. Left and right ears from 3 embryos of the same genotype were pooled for each chip, and 3 biological replicates of each chip were performed.

2013-01-01 | E-GEOD-34065 | biostudies-arrayexpress

Transcriptomic analysis of lung mesenchymal cells with lung-mesenchyme specific deletion of Sin3a

Project description:Congenital diaphragmatic hernia (CDH) is a common and severe congential malformation characterized by defects in diaphragm, lung, and pulmonary vascular developent. Despite the frequency and severity of CDH, the underlying developmental mechanisms are not understood. We identified SIN3A loss of function sequence variants in two patients with CDH. To understand the genetic and developmental mechanisms of CDH, we generated Sin3a conditional knockout mice that lack Sin3a expression in the lung mesenchyme. SIN3A has been shown to play a critcal role during development, directing cell lineage specification and cell cycling. We found mesenchymal progenitor cells in Sin3a CKO mice have altered expression of cell cycle progression genes from bulk lung transcriptomic analysis. To investigate changes in gene expression that occur specifically in lung mesenchymal cells, we performed fluorescent activated cell sorting (FACS) to isolate cells that underwent recombination of Sin3a. We then performed transcriptomic analysis on sorted mesenchymal cells from embryonic day 16 (E16) Sin3a CKO and control lungs. In this dataset are expression data from FACS-isolated recombined lung mesenchymal cells of Sin3a CKO and control mice. Sin3a CKO mice have conditional deletion of Sin3a in the lung mesenchyme directed by Tbx4rtta; tetocre (Tbx4rtta; tetocre; Sin3a flox/flox CKO). Control mice are heterozygous for Sin3a in the lung mesenchyme (Tbx4rtta; tetocre; Sin3a flox/WT). These data were used to identify transcriptional changes due to loss of Sin3a in the lung mesenchyme.

2023-12-31 | GSE246184 | GEO

Single-cell transcriptomic analysis of lung mesenchymal cells with mesenchyme-specific deletion of transcriptional regulator Sin3a

Project description:Congenital diaphragmatic hernia (CDH) is a common and severe congential malformation characterized by defects in diaphragm, lung, and pulmonary vascular developent. Despite the frequency and severity of CDH, the underlying developmental mechanisms are not understood. We identified SIN3A loss of function sequence variants in two patients with CDH. To understand the genetic and developmental mechanisms of CDH, we generated Sin3a conditional knockout mice that lack Sin3a expression in the lung mesenchyme. SIN3A has been shown to play a critcal role during development, directing cell lineage specification and cell cycling. We found that loss of SIN3A resulted in impaired mesenchymal cell differentiation from bulk lung transcriptomic analysis in Sin3a CKO mice. To investigate the impact of loss of SIN3A in mesenchymal cell differentation, we performed fluorescent activated cell sorting (FACS) to isolate cells that underwent recombination of Sin3a. We then performed single-cell transcriptomic analysis on sorted mesenchymal cells from embryonic day 16 (E16) Sin3a CKO and control lungs. In this dataset are expression data from FACS-isolated recombined lung mesenchymal cells of Sin3a CKO and control mice. Sin3a CKO mice have conditional deletion of Sin3a in the lung mesenchyme directed by Tbx4rtta; tetocre (Tbx4rtta; tetocre; Sin3a flox/flox CKO). Control mice are heterozygous for Sin3a in the lung mesenchyme (Tbx4rtta; tetocre; Sin3a flox/WT). These data were used to identify transcriptional changes due to loss of Sin3a in the lung mesenchyme.

2023-12-31 | GSE246194 | GEO

Expression data from mesodermal Tbx1-knockout otic vesicles and periotic mesenchyme at E11.5

2013-01-01 | GSE34065 | GEO