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Next Generation Sequencing Facilitates Quantitative Analysis of Wild Type and Fbl+/- Raw264.7 Transcriptomes

ABSTRACT: Next Generation Sequencing Facilitates Quantitative Analysis of Wild Type and Fbl+/- Raw264.7 Transcriptomes

PROVIDER: PRJNA770340 | ENA |

REPOSITORIES: ENA

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Next Generation Sequencing Facilitates Quantitative Analysis of Wild Type and Fbl+/- Raw264.7 Transcriptomes

Project description:The goal of this study is to compare NGS-derived wild-type Raw264.7 transcriptome profiling (RNA-seq) to NGS-derived Fibrillarin knockdown (Fbl+/-) Raw264.7 RNA-seq. The mRNA profiles of wild-type Raw264.7 and Fbl+/− Raw264.7 were generated by deep sequencing, in duplicate, using illumina NovaSeq 6000.

2022-04-05 | GSE185660 | GEO

Next Generation Sequencing Facilitates Quantitative Analysis of sh-NC and sh-Etv5 macrophage line Raw264.7 Transcriptomes

Project description:Purpose: Next-generation sequencing (NGS) has revolutionized systems-based analysis of cellular pathways. The goals of this study are to compare sh-NC with sh-Etv5 macrophage line Raw264.7 transcriptome profiling (RNA-seq).

2022-02-06 | GSE166294 | GEO

Next Generation Sequencing Facilitates Quantitative Analysis of Wild Type and Tet2 Mutant Macrophage Transcriptomes [RAW264.7]

Project description:Next Generation Sequencing Facilitates Quantitative Analysis of Wild Type and Tet2 Mutant Macrophage Transcriptomes [RAW264.7]

| PRJNA623341 | ENA

Next Generation Sequencing Facilitates Quantitative Analysis of sh-NC and sh-Etv5 macrophage line Raw264.7 Transcriptomes

Project description:Next Generation Sequencing Facilitates Quantitative Analysis of sh-NC and sh-Etv5 macrophage line Raw264.7 Transcriptomes

| PRJNA700077 | ENA

Next Generation Sequencing Facilitates Quantitative Analysis of the transcriptomes of RAW264.7 cell in 3D and 2D culture

Project description:Purpose: the goal of this study is to detect and compare the transcriptome expression of mouse macrophages cultured in 3D and 2D environments, and find the effect of 3D culture on macrophages compared with traditional 2D culture. Methods: Total RNA was extracted from purified and untreated RAW264.7 cells from 3D and 2D culture systems using TRIzol. The RNA samples were analyzed using Whole Genome Oligo Microarrays. After RNA had been hybridized to the microarray, it was washed and scanned, and data were extracted using Agilent Feature Extraction Software. Gene expression data were generated using Affymetrix GeneChip Human Genome U133 Plus 2.0 on an Affymetrix 3000 instrument running Gene‑Chip operating software. Result: RNA-sequencing (RNA-seq) revealed that after 24 h of culture under the same conditions, 3D-cultured macrophages showed significant differences in gene expression. RNA-seq detected 18580 genes in the 2D group and 15777 genes in the 3D group, among which 6762 were differentially expressed (|log2(fold change)| >= 1, padj < 0.05) in both 3D and 2D groups. A total of 5949 genes were downregulated and 813 were upregulated. Conclusion: Our study represents the first detailed analysis of the effect of 3D culture on mouse macrophages, and the results showed that compared with traditional 2D culture, the gene expression of macrophages under 3D culture was significantly changed.These findings are therefore worthy of further investigation and verification, and provide novel avenues for future research in cytology and macrophages.

2021-12-20 | GSE186841 | GEO

Next-generation sequencing facilitates quantitative analysis of wild-type and Nrl(-/-) retinal transcriptomes.

Project description: Not available

| S-EPMC3233386 | biostudies-literature

Next Generation Sequencing Facilitates Quantitative Analysis of Macrophage (RAW264.7) with and without arctigenin treatment

Project description:Next Generation Sequencing Facilitates Quantitative Analysis of Macrophage (RAW264.7) with and without arctigenin treatment

| PRJNA525768 | ENA

Next Generation Sequencing Facilitates Quantitative Analysis of the transcriptomes of RAW264.7 cell in 3D and 2D culture

Project description:Next Generation Sequencing Facilitates Quantitative Analysis of the transcriptomes of RAW264.7 cell in 3D and 2D culture

| PRJNA776275 | ENA

Next Generation Sequencing Facilitates Quantitative Analysis of Solanum lycopersicum bud and flower Transcriptomes

Project description:Next Generation Sequencing Facilitates Quantitative Analysis of Solanum lycopersicum bud and flower Transcriptomes

2021-02-27 | GSE164382 | GEO

Next Generation Sequencing Facilitates Quantitative Analysis of Macrophage (RAW264.7) with and without arctigenin treatment

Project description:Purpose: Next-generation sequencing (NGS) has revolutionized systems-based analysis of cellular pathways. The goals of this study are to explore the mechanism and target of arctigenin affecting macrophages (RAW264.7) Methods: Total mRNA was extracted from cells using an RNA extraction kit (Qiagen K.K., Tokyo, Japan). RNA-Seq was performed using HiSeq X Ten for next-generation sequencing by OE Biotech. Co., Ltd. (Shanghai, China). Sequenced reads were mapped to the mm9 genome using hisat2.The RNA-Seq reads that were aligned against the exon regions of genes were quantified with HTSeq-Count in the RefSeq mm9 annotation. GSEA was performed on mRNA expression datasets using the Kyoto Encyclopedia of Genes and Genomes (KEGG) database. Gene signatures were considered enriched if the false discovery rate (FDR) q-values and the family-wise error rate (FWER) p-values show significant difference. Result: The GSEA from the KEGG database indicated that AG-induced biological processes involved several inflammatory process. GSEA methods on immunologic gene sets of Molecular Signatures Database show that the gene set of NFAT5 knockout passed the filtering criteria (p<0.01) Conclusion: NFAT5 was the target of arctigenin

2019-03-07 | GSE127902 | GEO

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