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Transcriptomic analysis of neuroblastoma cells in response to stable over-expression of long noncoding RNA derived from HNF4A gene (HNF4A-AS1)

ABSTRACT: Transcriptomic analysis of neuroblastoma cells in response to stable over-expression of long noncoding RNA derived from HNF4A gene (HNF4A-AS1)

PROVIDER: PRJNA601995 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR10911108_1.fastq.gz	Fastqsanger.gz
	SRR10911108_2.fastq.gz	Fastqsanger.gz
	SRR10911109_1.fastq.gz	Fastqsanger.gz
	SRR10911109_2.fastq.gz	Fastqsanger.gz

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Transcriptomic analysis of neuroblastoma cells in response to stable over-expression of long noncoding RNA derived from HNF4A gene (HNF4A-AS1)

Project description:Long noncoding RNAs (lncRNAs), one type of endogenous RNA longer than 200 nucleotides, play emerging roles in tumorigenesis and aggressiveness. However, the functions and underlying mechanisms of lncRNAs in regulating neuroblastoma progression still remain elusive. We identify HNF4A antisense RNA 1 (HNF4A-AS1), a lncRNA derived from upstream region of hepatocyte nuclear factor 4 alpha (HNF4A), as a novel driver of neuroblastoma progression. To investigate the mechanisms underlying the oncogenic functions of HNF4A-AS1, we employed the Illumina HiSeq X Ten as a discovery platform to analyze the transcriptome profiling changes of human neuroblastoma SH-SY5Y cells in response to stable over-expression of HNF4A-AS1. The results showed that stable over-expression of HNF4A-AS1 led to altered expression of 4296 human mRNAs, including 2169 up-regulated genes and 2127 down-regulated genes. Furthermore, we validated the RNA-seq results by real-time RT-PCR with high identity. Overall, our results provided fundamental information about the transcriptomic changes in response to HNF4A-AS1 over-expression in human tumor cells, and these findings will help us understand the pathogenesis of tumor progression.

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Transcriptomic analysis of neuroblastoma cells in response to stable over-expression of GATA2 antisense RNA 1 (GATA2-AS1)

Project description:Long noncoding RNAs (lncRNAs), one type of endogenous RNA longer than 200 nucleotides, play emerging roles in tumorigenesis and aggressiveness. However, the functions and underlying mechanisms of lncRNAs in regulating neuroblastoma progression still remain elusive. We identify GATA2 antisense RNA 1 (GATA2-AS1), a lncRNA derived from GATA binding protein 2 (GATA2), as a novel suppressor of neuroblastoma progression. To investigate the mechanisms underlying the oncogenic functions of GATA2-AS1, we employed the Illumina HiSeq X Ten as a discovery platform to analyze the transcriptome profiling changes of human neuroblastoma BE(2)-C cells in response to stable over-expression of GATA2-AS1. The results showed that stable over-expression of GATA2-AS1 led to altered expression of 1933 human mRNAs, including 857 up-regulated genes and 1076 down-regulated genes. Furthermore, we validated the RNA-seq results by real-time RT-PCR with high identity. Overall, our results provided fundamental information about the transcriptomic changes in response to GATA2-AS1 over-expression in human tumor cells, and these findings will help us understand the pathogenesis of tumor progression.

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Transcriptomic analysis of neuroblastoma cells in response to stable over-expression of small peptide encoded by hepatocyte nuclear factor 4 alpha antisense RNA 1 (HNF4A-AS1)

Project description:Neuroblastoma (NB), a malignant embryonic tumor arising from primitive neural crest cells, accounts for more than 7% of malignancies and around 15% of cancer-related mortality in childhood. Better elucidating the mechanisms of tumorigenesis and aggressiveness is important for improving the therapeutic efficiencies of NB. We identified a small 51-amino acid peptide (sPEP1) encoded by hepatocyte nuclear factor 4 alpha antisense RNA 1 (HNF4A-AS1) in NB cells treated by serum deprivation. To investigate the mechanisms underlying the oncogenic functions of sPEP1, we employed the Illumina HiSeq X Ten as a discovery platform to analyze the transcriptome profiling changes of human SH-SY5Y cells in response to stable over-expression of sPEP1. The results showed that stable over-expression of sPEP1 led to altered expression of 2543 human mRNAs, including 2457 up-regulated genes and 86 down-regulated genes. Then we found the possible roles of these differentially regulated mRNAs in selected pathways including stemness, senescence, invasion, and metastasis by Bioinformatic analysis. Furthermore, we validated the RNA-seq results by real-time RT-PCR with high identity. Overall, our results provided fundamental information about the transcriptomic changes in response to sPEP1 over-expression in human NB cells, and these findings will help us understand the pathogenesis of NB.

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Transcriptomic analysis of neuroblastoma cells in response to stable over-expression of small peptide encoded by hepatocyte nuclear factor 4 alpha antisense RNA 1 (HNF4A-AS1)

Project description:Transcriptomic analysis of neuroblastoma cells in response to stable over-expression of small peptide encoded by hepatocyte nuclear factor 4 alpha antisense RNA 1 (HNF4A-AS1)

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