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Next Generation Sequencing Facilitates Quantitative Analysis of SiHa cells with or without circCDKN2B-AS1 knockdown

ABSTRACT: Next Generation Sequencing Facilitates Quantitative Analysis of SiHa cells with or without circCDKN2B-AS1 knockdown

PROVIDER: PRJNA612786 | ENA |

REPOSITORIES: ENA

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Next Generation Sequencing Facilitates Quantitative Analysis of SiHa cells with or without circCDKN2B-AS1 knockdown

Project description:circCDKN2B-AS1 is significantly upregulated circRNA in HPV16 positive cervical cancer tissues comprared with both HPV16 positive and HPV16 negative normal cervical tissues.So we chose it for further study.To explore the mRNA expression profiles following circCDKN2B-AS1 knockdown, we performed RNA sequencing analysis in SiHa cells with or without circCDKN2B-AS1 knockdown.We performed RNA sequencing in two pairs of RNA samples of SiHa cells with or without circCDKN2B-AS1 knockdown.

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miRNA expression profiles among SiHa, SiHa-tw2 and SiHa-shtw2

Project description:To further identify the most significantly changed miRNA resulting from the different expression levels of TWIST2 in cervical cancer cells, we used a miRNA microarray to identify the miRNA expression profiles among SiHa, SiHa-tw2 and SiHa-shtw2. The significantly deregulated miRNAs (changes of more than 2-fold in expression) included miR-23b-5p, miR-221-3p, miR-502-3p, miR-221-5p, miR-15a-5p, miR-1227, miR-93-5p and miR-4257.

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Project description:To investigate the different gens expression in the cervical immortalized cervical cells (H8 cells), cervical cancer cells (SiHa cells) and KD HSPA9 SiHa cells.

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Transcriptome analysis of SiHa cells

Project description:This study assessed the transcriptional profile of SiHa cells. SiHa is a cervical cancer cell line with integrated HPV16, and was used as a model to study human gene expression in the context of integrated virus. Gene expression in SiHa, calculated by Cufflinks, was scored in windows around the locations of known viral integrations in patients or cell lines to determine if there was an association between gene expression and viral integration. We found that SiHa gene expression was higher near loci of integration for HPV18 vs. HPV16, cervical tissues vs. head and neck cancers, and cervical cancers vs. in vitro integrations. This study provides insight into the factors that may influence where viruses integrate in the human genome.

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Effects of POTEF-AS1 knockdown in prostate cancer cells

Project description:Prostate cancer is the most common cancer in men and AR downstream signalings promote prostate cancer cell proliferation. We identified POTEF-AS1 is an androgen-regulated non-coding RNA gene. In order to investigate the POTEF-AS1 function in prostate cancer cells, we performed gene expression in AR-positive prostate cancer cell lines after siPOTEF-AS1 treatment. We also treated cells with vehicle or androgen to analyzed the effects of POTEF-AS1 on AR function.

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