Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Next Generation Sequencing Analysis of Wild Type Mouse Embryonic Fibroblast (MEFs) Transcriptomes Stimulated by Viral Mimics

ABSTRACT: Next Generation Sequencing Analysis of Wild Type Mouse Embryonic Fibroblast (MEFs) Transcriptomes Stimulated by Viral Mimics

PROVIDER: PRJNA438651 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR6847710_1.fastq.gz	Fastqsanger.gz
	SRR6847710_2.fastq.gz	Fastqsanger.gz
	SRR6847711_1.fastq.gz	Fastqsanger.gz
	SRR6847711_2.fastq.gz	Fastqsanger.gz
	SRR6847712_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 18

Similar Datasets

Next Generation Sequencing Analysis of Beta-actin knockout (KO) Mouse Embryonic Fibroblast (MEFs) Transcriptomes Stimulated by Viral Mimics

Project description:mRNA profiles of beta-actin knockout (KO) MEFs stimulated by viral mimics to study how global transcriptome changes after innate viral immunity activation

2019-05-02 | GSE130596 | GEO

Next Generation Sequencing Analysis of Beta-actin knockout (KO) Mouse Embryonic Fibroblast (MEFs) Transcriptomes Stimulated by Viral Mimics

Project description:Next Generation Sequencing Analysis of Beta-actin knockout (KO) Mouse Embryonic Fibroblast (MEFs) Transcriptomes Stimulated by Viral Mimics

| PRJNA540709 | ENA

Next Generation Sequencing Analysis of Wild Type Mouse Embryonic Fibroblast (MEFs) Transcriptomes Stimulated by Viral Mimics

Project description:Purpose: The goals of this study are to use NGS to perform transcriptome profiling (RNA-seq) to find the changes of the global gene expression programs after viral mimic stimulation in Mouse Embryonic Fibroblasts (MEFs) Methods: MEFs were staimulated by 10 ug/ml Poly(dA:dT) or Poly(I:C) using Lipofectamine 2000 (Invitrogen) as transfection regaent in Opti-MEM medium for 6 hours. Mock groups were treated only with transfection regaent. Total RNA was extracted using RNeasy Mini Kit (Qiagen) according to the manufacturer protocol. Total RNA was used for library construction at the Center for Genomics and Systems Biology, New York University Abu Dhabi, using TruSeq RNA Library Prep Kit v2 (Illumina). Deep-sequencing was performed using Illumina HiSEq 2500 sequencing platform (New York University Abu Dhabi Sequencing Center). Data was processed through the standard RNAseq analysis pipeline at NYUAD. Read aligmnet was performed using tophat2 v2.1.0 against Mus musculus GRCm38.p4 genome version. Raw counts of mapped reads of each genes were derived using HTseq count. DESeq2 was used for differential expression analysis. Results: Using an optimized data analysis workflow, we identified genes up-regulated or down-regulated after anti-viral immunity activation. Gene ontology analysis further identified biological processes, cellular components and molecular functions that were overrepresented in the differentially expressed genes. Conclusions: Our study provides a good reourses for profiling genes regulations after viral immunity activation

2018-06-15 | GSE111938 | GEO

Transient DNMT3L expression in mouse embryonic fibroblast (MEFs)

Project description:Transient DNMT3L expression in mouse embryonic fibroblast (MEFs)

| PRJNA558078 | ENA

Next-Generation Sequencing Facilitates Quantitative Analysis of Interferon-Stimulated MEFs Transcriptomes [RNA-Seq]

Project description:Next-Generation Sequencing Facilitates Quantitative Analysis of Interferon-Stimulated MEFs Transcriptomes [RNA-Seq]

| PRJNA730022 | ENA

RNAseq of Mouse Embryonic Fibroblasts(MEFs) stimulated by IL-17

Project description:RNAseq of Mouse Embryonic Fibroblasts(MEFs) stimulated by IL-17

| PRJNA1098232 | ENA

Next Generation Sequencing Analysis of chemically reprogrammed osteoblasts from Beta-actin Wildtype (WT) Heterozygotes (HET) and knockout (KO) Mouse Embryonic Fibroblast (MEFs)

Project description:mRNA profiles of chemically reprogrammed osteoblasts from Beta-actin Wildtype (WT) Heterozygotes (HET) and knockout (KO) Mouse Embryonic Fibroblast (MEFs)

2019-08-06 | GSE135392 | GEO

Comparison of Stat3 chromatin distributions in cytokine v peroxide-stimulated MEFs

Project description:Comparison of Stat3 chromatin distributions in cytokine v peroxide-stimulated MEFs

| PRJNA661473 | ENA

Expression data from induced pluripotent stem cells (iPSCs), mouse embryonic stem cells (mESCs), and mouse embryonic fibroblast (MEFs)

Project description:During reprogramming of mouse embryonic fibroblast, pluripotent genes are up-regulated. Once iPSCs are successfully reprogrammed, the global gene profiles of iPSCs are comparable to mouse ESC. We used microarrays to detail the global programme of gene expression in iPSCs, mESCs, MEFs.

2017-03-09 | GSE71255 | GEO

Transient DNMT3L expression in mouse embryonic fibroblast (MEFs)

Project description:Global heterochromatin reduction, which is one of the hallmarks of aging cells, is associated with reduced transposable element repression and increased risk of chromatin instability. To ensure genomic integrity, the irreparable cells in a population exit permanently from the cell cycle, and this process is termed “senescence”. However, senescence only blocks the expansion of unwanted cells, and the aberrant chromatin of senescent cells remains unstable. Serendipitously, we found that the transient ectopic expression of a repressive epigenetic modulator, DNA methyltransferase 3-like (DNMT3L) was sufficient to delay the premature senescence progression of late-passage mouse embryonic fibroblasts (MEFs) associated with a tightened global chromatin structure. DNMT3L induces more repressive H3K9 methylation on endogenous retroviruses and downregulates the derepressed transposons in aging MEFs. In addition, we found that a pulse of ectopic DNMT3L resulted in the reestablishment of H3K27me3 on polycomb repressive complex 2 (PRC2)-target genes that were derepressed in old MEFs. We demonstrated that ectopic DNMT3L interacted with PRC2 in MEFs. Our data also suggested that ectopic DNMT3L might guide PRC2 to redress deregulated chromatin regions in aging cells. This study might lead to an epigenetic reinforcement strategy for overcoming aging-associated epimutation and senescence.

2019-08-02 | GSE135258 | GEO

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data