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A Long Noncoding RNA Acts as a Tumor Suppressor in Esophageal Squamous Cell Carcinoma

ABSTRACT: Many long noncoding transcripts are involved in cancer progression. Here, we utilized high-throughput microarray to compare the transcriptome alterations between the KYSE30 cells overexpressing an empty vector and Epist, thus identified 95 and 99 down-regulated and up-regulated genes, respectively. Expression levels of several previously reported genes implicated in cancer development and progression were altered, such as DDIT3, GATA6, UPP1, FAT3. These genes are involved in tumorigenesis through diverse mechanisms. The present study reveals that Epist functions as a tumor suppressor in Esophageal Squamous Cell Carcinoma.

ORGANISM(S): Homo sapiens

PROVIDER: GSE64792 | GEO | 2015/01/09

SECONDARY ACCESSION(S): PRJNA271889

REPOSITORIES: GEO

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A Long Noncoding RNA Acts as a Tumor Suppressor in Esophageal Squamous Cell Carcinoma

Project description:Many long noncoding transcripts are involved in cancer progression. Here, we utilized high-throughput microarray to compare the transcriptome alterations between the KYSE30 cells overexpressing an empty vector and Epist, thus identified 95 and 99 down-regulated and up-regulated genes, respectively. Expression levels of several previously reported genes implicated in cancer development and progression were altered, such as DDIT3, GATA6, UPP1, FAT3. These genes are involved in tumorigenesis through diverse mechanisms. The present study reveals that Epist functions as a tumor suppressor in Esophageal Squamous Cell Carcinoma. KYSE30 cells overexpressing an empty vector were compared to KYSE30 cells overexpressing Epist. Three biological replicates of each condition were analysed on Agilent microarray.

2015-01-09 | E-GEOD-64792 | biostudies-arrayexpress

MicroRNAs among esophageal cancer cell sublines with different migration ability

Project description:Cellular directed migration is critical to invasion-metastasis cascade of cancer cells. We used in vitro transwell model to screen two esophageal cancer cell lines (KYSE30/180) and obtained two pairs of subpopulations with distinc motiliyt ability. Then we used microarrays to detail the differentially expressed genes and microRNAs between these two cell sublines (30U/D and 180U/D) to identify those responsible for ESCC motility. KYSE30/180 cells were subject to four successive selections using transwell (CORNING, USA). Subpopulations penetrated through membrane (D) or not (U) were harvested respectively for RNA extraction and hybridization on Affymetrix genome and LC Sciences microRNA microarrays

2015-12-31 | E-GEOD-67509 | biostudies-arrayexpress

Expression analysis of gene expression chang in Homo sapiens Esophageal squamous cell carcinoma cells KYSE30 after knock down MTA2 gene

Project description:Investigation of whole genome gene expression level changes in Homo sapiens Esophageal squamous cell carcinoma cells KYSE30 after knock down of MTA2 gene expression

2021-03-10 | GSE112495 | GEO

Expression data among esophageal cancer cell sublines with different migration ability

Project description:Cellular directed migration is critical to invasion-metastasis cascade of cancer cells. We used in vitro transwell model to screen two esophageal cancer cell lines (KYSE30/180) and obtained two pairs of subpopulations with distinct motility ability. Then we used microarrays to detail the differentially expressed genes and microRNAs between these two cell sublines (30U/D and 180U/D) to identify those responsible for ESCC motility. KYSE30/180 cells were subject to four successive selections using transwell (CORNING, USA). Subpopulations penetrated through membrane (D) or not (U) were harvested respectively for RNA extraction and hybridization on Affymetrix genome and LC Sciences microRNA microarrays simultaneously.

2015-12-31 | E-GEOD-67508 | biostudies-arrayexpress

Next generation sequencing facilitates transcriptome analyses of mock and RHCG transfected esophageal squamous cell carcinoma cell line KYSE30 cells

Project description:We obtained transcriptome profiling (RNA-seq) of human esophageal squamous cell carcinoma cell line KYSE30 cells stabley transfected with pIRES2-EGFP vector or human RHCG-expression vector by using next generation sequencing.

2019-09-26 | GSE87664 | GEO

MicroRNAs among esophageal cancer cell sublines with different migration ability

2015-12-31 | GSE67509 | GEO

Expression data among esophageal cancer cell sublines with different migration ability

2015-12-31 | GSE67508 | GEO

H1609088 Human RNA-Sequencing

Project description:Transcriptome profiling of KYSE30 cells after intracellular invasion by Porphyromonas gingivalis Purpose: Overabundance of Porphyromonas gingivalis (P. gingivalis) plays oncogenic roles in development and progression of esophageal squamous cell carcinoma (ESCC). To unveil the molecular mechanisms underlying the tumor-promoting role, RNAseq was used to identify differentially expressed genes in response to P. gingivalis in KYSE30 cells. Methods: mRNA profiles were generated by deep sequencing for P. gingivalis-treated KYSE30 cells and PBS-treated control cells in triplicate. RNAseq data were mapped to human genome (hg19) using Hisat2. Differentially expressed genes were identified using StringTiel and Ballgown. Results: A total of 10 239 genes and a total of 10 297 genes were identified in KYSE30 cells treated with P. gingivalis and PBS, respectively. After expression quantification using Ballgown, 124 up-regulated genes and 122 down-regulated genes were identified in P. gingivalis-treated KYSE30 cells compared with PBS-treated cells. Enrichment analysis of GO and KEGG pathway showed response to virus, innate immune response, Herpes simplex infection, metabolism of xenobiotics by cytochrome P450 and tyrosine metabolism were enriched in P. gingivalis-treated KYSE30 cells. Conclusions: This study reveals that P. gingivalis infection in ESCC triggers immune response and may cause deregulation of signal transduction through tyrosine metabolism.

2018-12-12 | GSE121995 | GEO

A Long Noncoding RNA Acts as a Tumor Promoter in Hepatocellular Carcinoma

Project description:Many long noncoding RNAs are involved in cancer development and progression. Here, we utilized high-throughput microarray to compare the expression difference of transcriptome between the LINC01225 stable knockdown SMCC7721 cells and mock empty plasmid treated SMCC7721 cells; the LINC01225 stable knockdown MHCC97H cells and mock empty plasmid treated MHCC97H cells. These altered genes are involved in tumorigenesis through diverse mechanisms. The present study reveals that LINC01225 functions as a tumor promoter in Hepatocellular Carcinoma. LINC01225 stable knockdown cells were compared to mock empty plasmid treated cells. In addition expression of genes in untreated SMCC7721 cells was detected, we performed a comparison between mock empty plasmid treated SMCC7721 cells and untreated SMCC7721 cells to determine that no confounding factors were brought in. The Agilent human lncRNA+mRNA Array V4.0 were used to perform the analysis.

2017-01-14 | E-MTAB-3833 | biostudies-arrayexpress

microRNA expression profiling of human esophageal metaplastic lesions

Project description:To test the hypothesis that there is a specific miRNA expression signature which characterizes Barrett's esophagus development and progression, we performed miRNA microarray analysis comparing normal esophageal squamous epithelium with the two different metaplastic lesions occuring within Barrett's mucosa (i.e. gastric metaplasia and intestinal metaplasia). Samples of H. pylori-related gastritis and gastric intestinal metaplasia were also considered in the definition of esophageal-specific miRNAs. miRNA microarray analysis was performed in a series of samples obtained from (a) 10 histologically-proven long-segment Barrett's esophagus patients; (b) 10 patients with H. pylori-related chronic atrophic gastritis. Overall, 10 normal esophageal squamous epithelium samples, 10 esophageal intestinal metaplasia samples, 10 esophageal gastric metaplasia samples, 10 H. pylori -related gastritis samples (no atrophic lesion detected; obtained from the antrum) and 10 gastric intestinal metaplasia samples (obtained from the antrum) were considered.

2011-01-01 | E-GEOD-24839 | biostudies-arrayexpress

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