Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Effect of MCM8 deficiency on gene expression of mouse embryo fibroblasts

ABSTRACT: Effect of MCM8 deficiency on gene expression of mouse embryo fibroblasts

PROVIDER: PRJNA1068097 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR27699728_1.fastq.gz	Fastqsanger.gz
	SRR27699728_2.fastq.gz	Fastqsanger.gz
	SRR27699729_1.fastq.gz	Fastqsanger.gz
	SRR27699729_2.fastq.gz	Fastqsanger.gz
	SRR27699730_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 12

Similar Datasets

Effect of MCM8 deficiency on gene expression of mouse embryo fibroblasts

Project description:MCM8 is essential in the replication stress response to maintain genome stability during mitosis. The deficiency of MCM8 results in impaired proliferation and a prolonged cell cycle, which can decrease cell populations. To investigate the effect of MCM8 deficiency on gene expression, we conducted the RNA-seq in wildtype and Mcm8 knockout mouse embryo fibroblasts. We found that the majority of genes were co-expressed and the gene expression distribution was comparable between WT and KO MEFs, suggesting that the global transcription activity was not obviously affected after MCM8 deficiency. Analysis of differentially expressed genes (DEGs) showed they were enriched in pathways including stem cell differentiation and cell fate commitment. In addition, to determine whether MCM8 is potentially involved in regulating splicing, as strongly suggested by the MCM8 interactome, we also performed alternative splicing (AS) analysis on RNA-seq data. Our data suggested that MCM8 may not function in splicing.

2024-05-30 | GSE254004 | GEO

Effect of Ankrd31 deficiency in mouse testicular transcriptome

Project description:Effect of Ankrd31 deficiency in mouse testicular transcriptome

| PRJNA489193 | ENA

Developing mouse embryo

Project description:Developing mouse embryo

| PRJNA888039 | ENA

Plasma DNA profile in DNASE1L3 deficiency-Mouse AAV samples

Project description:Plasma DNA profile in DNASE1L3 deficiency-Mouse AAV

| EGAS00001004409 | EGA

Effect of maternal iron deficiency on placental transcriptome in mouse

Project description:Effect of maternal iron deficiency on placental transcriptome in mouse

| PRJNA662354 | ENA

Erf chromatin binding-sites in E13.5 mouse embryo fibroblasts

Project description:We show that reduced dosage of ERF, which encodes an inhibitory ETS transcription factor directly bound by ERK1/2 , causes complex craniosynostosis (premature fusion of the cranial sutures) in humans and mice. Features of this newly recognized clinical disorder include multiple suture synostosis, craniofacial dysmorphism, Chiari malformation and language delay. Mice with functional Erf reduced to ~30% of normal exhibit postnatal multisuture synostosis; by contrast, embryonic calvarial development appears mildly delayed. Using chromatin immunoprecipitation in mouse embryonic fibroblasts and high-throughput sequencing, we find that ERF binds preferentially to distal regulatory elements containing RUNX or AP1 motifs. This work identifies ERF as a novel regulator of osteogenic stimulation by RAS-ERK signaling, potentially by competing with activating ETS factors in multifactor transcriptional complexes. Examination of Erf binding site in E13.5 mouse embryo fibroblasts, growing in the presence or absence of serum for 4 hours

2013-01-15 | E-GEOD-42936 | biostudies-arrayexpress

Characterization of the Imprinting Signature of Mouse Embryo Fibroblasts by RNA Deep Sequencing

Project description:Mouse embryo fibroblasts (MEFs) closely resemble mouse embryos and are convenient sources for biochemical studies when cell number may be limiting from mouse embryos. To derive the imprinting signature of MEFs and potentially detect novel imprinted genes we characterized them using strand- and allele-specific RNA deep sequencing. We used Sequenom allelotyping in embryo and adult organs to verify parental allele-specific expression patterns. We found correct parental allele-specific transcription of 32 known ubiquitously imprinted genes in MEFs. Our analysis did not reveal any novel imprinted genes in MEFs, but detected extended parental allele-specific transcription in several known imprinted domains: maternal allele-specific transcription downstream of Grb10 and downstream of Meg3, Rtl1as and Rian in the Dlk1-Dio3 cluster, an imprinted domain implicated in development. We detected paternal allele-specific transcription downstream of Nespas, Peg3, Peg12 and Snurf/Snrpn. These imprinted transcript extensions were not unique to MEFs, but were also present in other somatic cells. Their 5’ end points did not carry opposing chromatin marks or parental allele-specific DNA methylation, suggesting that their parental allele-specific transcription is under the control of the extended genes. Based on the imprinting signature of MEFs, they provide valid models for understanding the biochemical aspects of genomic imprinting. Strand-specific and parental allele-specific RNA-seq was done in female mouse embryo fibroblasts.

2013-11-18 | E-GEOD-49538 | biostudies-arrayexpress

Effect of DKK1 on embryo elongation

Project description:Effect of DKK1 on embryo elongation

| PRJNA522975 | ENA

Transcription profiling by array of mouse embryo fibroblasts from wild type and sp3 E553D knock in mutants defective for SUMOylation

Project description:Transcription profiling of mouse embryo fibroblasts E13.5, wildtype and Sp3 E553D knockin mutant defect for SUMOylation

2010-12-31 | E-MEXP-2755 | biostudies-arrayexpress

Spatiotemporal transcriptomes of mouse embryo

Project description:Spatiotemporal transcriptomes of mouse embryo

| PRJNA739756 | ENA