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RNA Sequencing Facilitates Quantitative Analysis of Adenovirus-treated Eed Floxed Mouse Mesenchymal Stem Cells Gene Expression

ABSTRACT: RNA Sequencing Facilitates Quantitative Analysis of Adenovirus-treated Eed Floxed Mouse Mesenchymal Stem Cells Gene Expression

PROVIDER: PRJNA471539 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR7167780.fastq.gz	Fastqsanger.gz
	SRR7167781.fastq.gz	Fastqsanger.gz
	SRR7167782.fastq.gz	Fastqsanger.gz
	SRR7167777.fastq.gz	Fastqsanger.gz
	SRR7167778.fastq.gz	Fastqsanger.gz

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RNA Sequencing Facilitates Quantitative Analysis of Adenovirus-treated Eed Floxed Mouse Mesenchymal Stem Cells Gene Expression

Project description:Purpose: RNA sequencing has revolutionized systems-based analysis of cellular pathways. The goals of this study are to compare Cre-treated versus YFP-treated mouse mesenchymal stem cells regarding gene expression. Mesenchymal miRNA profiles of 10-day-old Eed floxed calvaria infected with YFP and Adenovirus-CRE cells were generated by deep sequencing, in triplicate, using BGISEQ-500. The sequence reads that passed quality filters were mapped using HISAT and Bowtie2. Isoform expression levels were analyzed using RSEM.

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Eed conditional knockout in chondrocytes

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Next-generation Sequencing Facilitates Quantitative Analysis of Wild Type and EED cKO mice Hippocampus Dentate Gyrus Transcriptomes

Project description:Purpose:Quantification differentially expressed genes and find target genes. The goals of this study are to compare Wild Type and EED cKO hippocampus dentate gyrus transcriptome profiling (RNA-seq) to quantitative reverse transcription polymerase chain reaction (qRT–PCR) differentially expressed genes and find target genes Methods: Hippocampus dentate gyrus mRNA profiles of 14-day-old wild-type (WT) and Embryonic Ectoderm Development conditional knockout (EED cKO) mice were generated by deep sequencing, in two biological replicates,using BGISEQ-500 platform.All RNA-Seq data were aligned to mouse genome version mm10 using HISAT.We use cluster software and Euclidean distance matrix for the hierarchical clustering analysis of the expressed gene and sample program at the same time, the clustering results can be viewed with javaTreeview. qRT–PCR validation was performed using SYBR Green assays. Results:Only transcripts that showed more than 2-fold differential expression compared to control were subjected to relevance network analysis. 1047 candidate genes that were differentially expressed with biological functional groups as compared between WT and EED cKO mice . Conclusions: Our study represents the first detailed analysis of Wild Type and EED cKO mice hippocampus dentate gyrus transcriptomes, with two biologic replicates, generated by RNA-seq technology.

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2024-04-02 | GSE169312 | GEO

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Project description:Next-generation Sequencing Facilitates Quantitative Analysis of Wild Type and EED cKO mice Hippocampus Dentate Gyrus Transcriptomes

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Single cell RNA-seq developmental series in mouse hypothalamus in wild-type and Eed-cKO

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