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Transcriptome and chromatin accessibility analyses of UHRF1 KO osteosarcoma cell lines

ABSTRACT: Transcriptome and chromatin accessibility analyses of UHRF1 KO osteosarcoma cell lines

PROVIDER: PRJNA603579 | ENA |

REPOSITORIES: ENA

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Chromatin accessibility analysis of UHRF1 KO osteosarcoma cell lines

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RNA sequencing of WT and Uhrf1 KO iNKT cells

Project description:Deletion of Uhrf1 resulted in stage 1-specific defects during iNKT cell development. To investigate the molecular mechanism, we sorted WT and Uhrf1-KO stage 1 iNKT cells and performed RNA-seq. By comparing gene expression profile, we found metabolic defects in Uhrf1-KO stage 1 iNKT cells. The expression of CD71 (Tfrc), two subunits of CD98 (Slc3a2 and Slc7a5) and Glut3 (Slc2a3) was reduced in stage 1 iNKT cells. Besides, the downstream pathways of AKT-mTOR axis were significantly reduced. Collectively, our results suggest that Uhrf1 is required for iNKT cell development by regulating the Akt-mTOR signaling pathway. We first sorted WT and Uhrf1-KO stage 1 iNKT cells, extracted the mRNA and performed RNA-seq. We then analyzed the differentially expressed genes and performed KEGG pathway analysis. We used RT-PCR to verify the expression of the key nutrient related genes (Tfrc, Slc3a2, Slc7a5 and Slc2a3) and used flow cytometry to test the protein level of metabolic related molecules. Besides, we also analyzed the expression of genes of mTOR downstream pathways to demonstrate that Uhrf1 mediated AKt-mTOR axis regulates iNKT cell development.

2016-03-10 | E-GEOD-77941 | biostudies-arrayexpress

Transcriptome and chromatin accessibility analyses of UHRF1 KO osteosarcoma cell lines

Project description:This SuperSeries is composed of the SubSeries listed below.

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RNA sequencing of WT and Uhrf1 KO iNKT cells

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RNA-seq analysis of gene expression profile in Uhrf1 WT and KO germinal center B cells

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Expression data from HeLa cell lines stably expressing shRNA targeting ctrl or UHRF1

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