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Transcriptomic profiling of mRNA and miRNA from nasopharyngeal carcinoma (NPC) and normal control samples

ABSTRACT: This SuperSeries is composed of the SubSeries listed below.

ORGANISM(S): Homo sapiens

PROVIDER: GSE118721 | GEO | 2019/11/27

REPOSITORIES: GEO

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Transcriptomic profiling of nasopharyngeal carcinoma (NPC) and normal control samples

Project description:To understand the genes and pathways that may potentially drive nasopharyngeal carcinoma (NPC) pathogenesis, we sought out to analyze the transcriptomic data from the disease and control samples. We used RNA-sequencing based gene expression data to identify genes differentially expressed between NPC and normal controls and then characterize the gene ontology and pathways down- or up-regulated in the disease samples.

2019-11-27 | GSE118719 | GEO

miRNA-Seq profiling of nasopharyngeal carcinoma (NPC) and normal control samples

Project description:Epstein-Barr virus (EBV) is a ubiquitous human herpesvirus associated with nasopharyngeal carcinoma (NPC). EBV encodes two groups of microRNAs (miRNAs) which are divided into BamHI fragment H rightward open reading frame 1 (BHRF1) and BamHI-A rightward transcripts (BART) microRNAs. EBV miR-BARTs have been found to be involved in the development and progression of NPC. However, the role of EBV-miR-BARTs in NPC progression remains illusive. This study aimed to investigate the role of EBV-miR-BARTs in NPC and explore the underlying mechanisms.

2019-11-27 | GSE118720 | GEO

Transcriptomic profiling of mRNA and miRNA from nasopharyngeal carcinoma (NPC) and normal control samples

Project description:Transcriptomic profiling of mRNA and miRNA from nasopharyngeal carcinoma (NPC) and normal control samples

| PRJNA486528 | ENA

Transcriptomic profiling of nasopharyngeal carcinoma (NPC) and normal control samples

Project description:Transcriptomic profiling of nasopharyngeal carcinoma (NPC) and normal control samples

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miRNA-Seq profiling of nasopharyngeal carcinoma (NPC) and normal control samples

Project description:miRNA-Seq profiling of nasopharyngeal carcinoma (NPC) and normal control samples

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Identification of miRNA/mRNA-Negative Regulation Pairs in Nasopharyngeal Carcinoma.

Project description:BACKGROUND Nasopharyngeal carcinoma (NPC) is a common malignancy in South-East Asia. NPC is characterized by distant metastasis and poor prognosis. The pathophysiological mechanism of nasopharyngeal carcinoma is unknown. This study aimed to identify the crucial miRNAs in nasopharyngeal carcinoma and their target genes, and to discover the potential mechanism of nasopharyngeal carcinoma development. MATERIAL AND METHODS Microarray expression profiling of miRNA and mRNA from the Gene Expression Omnibus database was downloaded, and we performed a significance analysis of differential expression. An interaction network of miRNAs and target genes was constructed. The underlying function of differentially expressed genes was predicted through Gene Ontology and Kyoto Encyclopedia of Genes and Genomes pathway enrichment analyses. To validate the microarray analysis data, significantly different expression levels of miRNAs and target genes were validated by quantitative real-time polymerase chain reaction. RESULTS We identified 27 differentially expressed miRNAs and 982 differentially expressed mRNAs between NPC and normal control tissues. 12 miRNAs and 547 mRNAs were up-regulated and 15 miRNAs and 435 mRNAs were down-regulated in NPC samples. We found a total of 1185 negative correlation pairs between miRNA and mRNA. Differentially expressed target genes were significantly enriched in pathways in cancer, cell cycle, and cytokine-cytokine receptor interaction signaling pathways. Significantly differentially expressed miRNAs and genes, such as hsa-miR-205, hsa-miR-18b, hsa-miR-632, hsa-miR-130a, hsa-miR-34b, PIGR, SMPD3, CD22, DTX4, and CDC6, may play essential roles in the development of nasopharyngeal carcinoma. CONCLUSIONS hsa-miR-205, hsa-miR-18b, hsa-miR-632, hsa-miR-130a, and hsa-miR-34b may be related to the development of nasopharyngeal carcinoma by regulating the genes involved in pathways in cancer and cell cycle signaling pathways.

| S-EPMC4928598 | biostudies-literature

Nasopharyngeal carcinoma (NPC) cell lines

Project description:5 EBV-free nasopharyngeal carcinoma cell lines expression patterns again normal epithelial tissues. Keywords: repeat sample

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Nasopharyngeal carcinoma (NPC) cell lines

Project description:5 EBV-free nasopharyngeal carcinoma cell lines expression patterns again normal epithelial tissues.

2010-06-09 | E-GEOD-2370 | biostudies-arrayexpress

Transcriptomic Analysis of mRNA-lncRNA-miRNA Interactions in Hepatocellular Carcinoma.

Project description:Fully elucidating the molecular mechanisms of non-coding RNAs (ncRNAs), including micro RNAs (miRNAs) and long non-coding RNAs (lncRNAs), underlying hepatocarcinogenesis is challenging. We characterized the expression profiles of ncRNAs and constructed a regulatory mRNA-lncRNA-miRNA (MLMI) network based on transcriptome sequencing (RNA-seq) of hepatocellular carcinoma (HCC, n = 9) patients. Of the identified miRNAs (n = 203) and lncRNAs (n = 1,090), we found 16 significantly differentially expressed (DE) miRNAs and three DE lncRNAs. The DE RNAs were highly enriched in 21 functional pathways implicated in HCC (p < 0.05), including p53, MAPK, and NAFLD signaling. Potential pairwise interactions between DE ncRNAs and mRNAs were fully characterized using in silico prediction and experimentally-validated evidence. We for the first time constructed a MLMI network of reciprocal interactions for 16 miRNAs, three lncRNAs, and 253 mRNAs in HCC. The predominant role of MEG3 in the MLMI network was validated by its overexpression in vitro that the expression levels of a proportion of MEG3-targeted miRNAs and mRNAs was changed significantly. Our results suggested that the comprehensive MLMI network synergistically modulated carcinogenesis, and the crosstalk of the network provides a new avenue to accurately describe the molecular mechanisms of hepatocarcinogenesis.

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Methylome study in Nasopharyngeal Carcinoma (NPC)

Project description:Aberrant methylation at the promoter region of tumor suppressors is frequently reported in NPC; however, genome-wide methylation changes have not been comprehensively investigated. Therefore, we systematically analyzed methylome data in 25 primary NPC tumors and non-tumor counterparts using Illumina HumanMethylation450 BeadChip.

2016-01-01 | GSE62336 | GEO

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