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Transcriptomic data of parent and NAPE-PLD deteled Caco-2 cells

ABSTRACT: Transcriptomic data of parent and NAPE-PLD deteled Caco-2 cells

PROVIDER: PRJNA477784 | ENA |

REPOSITORIES: ENA

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Transcriptomic data of parent and NAPE-PLD deteled Caco-2 cells

Project description:PURPOSE: We generated NAPE-PLD-deleted Caco-2 cells, which is a model of intestinal epithelial cells, using genome editing with the CRISPR/Cas9 system. To explore the molecular events following the deletion of NAPE-PLD in Caco-2 cells, we examined the transcriptomic changes in the NAPE-PLD deleted clone 35 compared with Caco-2 parent cells by RNA-seq. METHODS: mRNA profiles of parent and NAPE-PLD deleted Caco-2 cells were generated using Illumina HiSeq4000 (n=2/each cell). Those raw sequence data were then mapped to the human hg38 reference genome using a custom MOIRAI pipeline with STAR 2.51 for alignment. Then, read counts for each transcript were obtained using featureCounts, and the raw count data were directly analyzed for differential gene expression by using edgeR 3.20.9. RESULTS: Approximately 40 million reads per sample were obtained as raw data. Among a total of 12,331 genes detected in at least in one cell type, 1,019 genes were up-regulated (FDR < 0.01, logFC > 1) and 827 genes were down-regulated (FDR < 0.01, logFC > 1) in clone 35 compared with the parental cells.

2021-06-23 | GSE116213 | GEO

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RNA-seq data from human Caco-2 cells co-incubated with Giardia intestinalis WB cyst cells

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Proteome of Caco-2 cells, transfected with KRAS-G12D and stimulated with different conditions.

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2023-02-23 | PXD039404 | Pride

RNA-seq data from Giardia intestinalis WB trohozoites 7h into encysting Giardia cells infecting human Caco-2 cells

Project description:RNA-seq data from Giardia intestinalis WB trohozoites 7h into encysting Giardia cells infecting human Caco-2 cells

2022-01-31 | GSE144001 | GEO

Caco-2 cells: cycling vs 21-days differentiated cells

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Expression data from Caco-2 cells expressing TLR4 and associated mutants

Project description:Common missense mutations (D299G, T399I) have been recently identified in the human TLR4 gene. The aim of this study was to determine how TLR4 and associated mutants affect gene expression in Caco-2 cells. We used microarrays to asses gene expression profiles in Caco-2 stably overexpressing TLR4-WT, TLR4-D299G, TLR4-T399I or untransfected.

2011-10-11 | GSE26226 | GEO

Expression data from non-infected and HAstV-1 infected Caco-2 cells

Project description:Expression data from non-infected and HAstV-1 infected Caco-2 cells

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Caco-2 cells: cycling vs 21-days differentiated cells

Project description:Transcriptional profile of 21-days differentiated Caco-2 cells compared to Caco-2 cycling cells. Goal was to demonstrate the ability of Caco-2 cells to express most of the markers typical of differentiated enterocytes. A novel protocol of line maintenance was used. Two-condition experiment: cycling Caco-2 cells and 21-days differentiated Caco-2 cells. Two biological replicates of each condition in dye-swap configuration

2011-04-25 | E-GEOD-21519 | biostudies-arrayexpress

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