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Links from GEO DataSets

Items: 20

1.

HOTAIR reprograms gene expression profiling in esophageal squamous cell carcinoma (ESCC) KYSE180 cells

(Submitter supplied) To investigate the functional role of HOTAIR in esophageal squanmous cell carcinoma (ESCC) cells, RNAi-mediated knockdown of HOTAIR and overexpression of HOTAIR were carried out using KYSE180 cells. Gene expression microarray analysis revealed that a number of reported HOTAIR target genes were regulated by HOTAIR. Moreover, gene ontology analysis revealed enrichment of genes closely related to tumorigenesis, such as cell migration, regulation of cell cycles.
Organism:
Homo sapiens
Type:
Expression profiling by array
Platform:
GPL15207
3 Samples
Download data: CEL
Series
Accession:
GSE47638
ID:
200047638
2.

KYSE180 cells transfected with HOTAIR compared to control cells

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Homo sapiens
Type:
Expression profiling by array; Methylation profiling by array
Platforms:
GPL13534 GPL15207
5 Samples
Download data: CEL
Series
Accession:
GSE47639
ID:
200047639
3.

Genome-wide DNA methylation profiling of KYSE180 cells transfected with HOTAIR vector using Illumina HumanMethylation 450 arrays

(Submitter supplied) To analysis of the effect of HOTAIR on global DNA methylation in KYSE180 esophageal cancer cell line, genome-scale DNA methylation was analyzed in a pair of esophageal cancer cell lines, KYSE180 cells stably transfected with HOTAIR and control KYSE180 cells. The results from genome-wide DNA methylation analysis indicate that hypermethylation occurs more frequently than hypomethylation after stably ectopic expressing HOTAIR in KYSE180 cells.
Organism:
Homo sapiens
Type:
Methylation profiling by array
Platform:
GPL13534
2 Samples
Download data: TXT
Series
Accession:
GSE47637
ID:
200047637
4.

TP63-driven super-enhancer-associated LINC01503 promotes the malignancy of esophageal squamous cell carcinoma

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Homo sapiens
Type:
Genome binding/occupancy profiling by high throughput sequencing; Other
Platform:
GPL16791
16 Samples
Download data: BW, NARROWPEAK, TXT
Series
Accession:
GSE106434
ID:
200106434
5.

TP63-driven super-enhancer-associated LINC01503 promotes the malignancy of esophageal squamous cell carcinoma (ChIP-Seq)

(Submitter supplied) Background & Aims: Lineage-specific expression of long non-coding RNAs (lncRNAs) has been observed recently. However, the underlying mechanism of such specific transcription regulation is unclear. The aim of this study is to identify squamous cell carcinoma (SCC) lineage-specific lncRNAs and to investigate the mechanisms for their expression and function. Methods: Expression characteristics and functions of four candidate SCC-specific lncRNAs were explored. more...
Organism:
Homo sapiens
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL16791
12 Samples
Download data: BW, NARROWPEAK
Series
Accession:
GSE106433
ID:
200106433
6.

TP63-driven super-enhancer-associated LINC01503 promotes the malignancy of esophageal squamous cell carcinoma (4C-Seq)

(Submitter supplied) Background & Aims: Lineage-specific expression of long non-coding RNAs (lncRNAs) has been observed recently. However, the underlying mechanism of such specific transcription regulation is unclear. The aim of this study is to identify squamous cell carcinoma (SCC) lineage-specific lncRNAs and to investigate the mechanisms for their expression and function. Methods: Expression characteristics and functions of four candidate SCC-specific lncRNAs were explored. more...
Organism:
Homo sapiens
Type:
Other
Platform:
GPL16791
4 Samples
Download data: TXT
Series
Accession:
GSE106432
ID:
200106432
7.

Expression data from different expressed genes(DEGs) in human esophageal squamous cell carcinoma(ESCC) EC109 cells transfected with empty lentiviral vector(Lv-NC) or lentiviral vector carrying MEG3(Lv-MEG3)

(Submitter supplied) Maternally expressed gene 3 (MEG3), a member of lncRNAs, has tumor-suppressor properties and is downregulated in the majority of malignancies. MEG3 was found to suppress some sorts of tumors through regulating epithelial mesenchymal transformation,inducing cell cycle arrest,triggering apoptosis and so on. We used microarrays to investigate the possible regulatory mechanism of MEG3 in ESCC cell line.
Organism:
Homo sapiens
Type:
Expression profiling by array
Platform:
GPL15207
6 Samples
Download data: CEL
Series
Accession:
GSE142036
ID:
200142036
8.

Genome-wide screening of the expression of long noncoding RNA and coding RNA expression in esophageal sqaumous cell cancer

(Submitter supplied) In order to understand the role of long noncoding RNAs (lncRNAs) and their interaction with coding RNAs in esophageal sqaumous cell cancer (ESCC), we performed genome-wide screening of the expression of lncRNAs and coding RNAs from primary ESCC tissue and adjacent normal tissue using Agilent SurePrint G3 Human GE 8x60K Microarray. By comparing ESCC tissues and matched normal tissues, differentially expressed lncRNAs and coding RNAs were identified and confirmed with PCR and other independent studies. more...
Organism:
Homo sapiens
Type:
Expression profiling by array; Non-coding RNA profiling by array
Platform:
GPL13607
8 Samples
Download data: TXT
Series
Accession:
GSE45350
ID:
200045350
9.

The long noncoding RNA HOTAIR has tissue and cell type dependent effects on HOX gene expression and phenotype of cancer cells

(Submitter supplied) HOTAIR was found to be overepressed in a subset of urothelial cancer tissues and cell lines compared to normal controls. Ectopic HOTAIR expression in urothelial cancer cells in vitro demonstrated cell type dependent changes in phenotype. While some cell lines showed increased proloferation activity and induction of an aggressive phenotypes (e.g. stable transfected VM-CUB1 cells), others displayed rather a reduction of proliferation and migration. more...
Organism:
Homo sapiens
Type:
Expression profiling by array
Platform:
GPL15207
12 Samples
Download data: CEL
Series
Accession:
GSE57672
ID:
200057672
10.

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

(Submitter supplied) 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. more...
Organism:
Homo sapiens
Type:
Expression profiling by array; Non-coding RNA profiling by array
Platform:
GPL19615
6 Samples
Download data: TXT
Series
Accession:
GSE64792
ID:
200064792
11.

RNA Sequencing Analysis Generates Comprehensive Transcriptomic Landscape and Identifies PTK6 as a Novel Tumor Suppressor Gene in Esophageal Squamous Cell Carcinoma

(Submitter supplied) We performed the integrative transcriptome analysis of human esophageal squamous cell carcinoma (ESCC) using Illumina high-throughput sequencing. A total of 187 million 38bp sequencing reads were generated containing 7 billion bases for three pairs of matched patient-derived ESCC clinical specimens and their adjacent non-tumorous tissues. By investigating the digital gene expression profiling, we found 1425 genes significantly differentially expressed and detected more than 9000 SNPs across all six samples. more...
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL10999
6 Samples
Download data: BAM
12.

Esophageal Squamous Cell Carcinoma tumors from Indian patients: nuclear-stabilized p53 (NS+) versus unstable p53 (NS-) protein

(Submitter supplied) Transcriptional profiling of Esophageal Squamous Cell Carcinoma (ESCC) tumors comparing samples harbouring nuclear-stabilized p53 (NS+) versus unstable p53 (NS-) protein, determined through immunohistochemistry (IHC) staining of the tumor sections. The goal was to identify the genes that were differentially regulated between NS+ and NS- ESCC samples.
Organism:
Homo sapiens
Type:
Expression profiling by array
Platform:
GPL4133
36 Samples
Download data: TXT
Series
Accession:
GSE218109
ID:
200218109
13.

Comprehensive Analysis of Recurrence-Associated Small Non-Coding RNAs in Esophageal Cancer [Illumina]

(Submitter supplied) Targeted cancer therapy for squamous cell carcinoma (SCC) has made little progress largely due to a lack of knowledge of the driving genomic alterations. Small non-coding RNAs (sncRNAs) as a potential biomarker and therapeutic target to SCC remain a challenge. We analyzed sncRNAs microarray in 108 fresh frozen specimens of esophageal squamous cell carcinoma (ESCC) as discovery set and assessed associations between sncRNAs and recurrence-free survival. more...
Organism:
Homo sapiens
Type:
Expression profiling by array
Platform:
GPL10558
18 Samples
Download data: TXT
Series
Accession:
GSE55854
ID:
200055854
14.

Epigenetic silencing of noncoding RNA nc886 provokes oncogenes during esophageal tumorigenesis

(Submitter supplied) nc886 is a 101 nucleotides long non-coding RNA that is also known as a precursor microRNA or a vault RNA. nc886 has been suggested to be a tumor suppressor, mainly inferred by its expression pattern as well as its genomic location at human chromosome 5q31, a locus for a tumor suppressor gene(s).
Organism:
Homo sapiens
Type:
Expression profiling by array
Platform:
GPL10558
18 Samples
Download data: TXT
Series
Accession:
GSE51732
ID:
200051732
15.

African American esophageal squamous cell carcinoma expression profile reveals loss of detox networks

(Submitter supplied) Esophageal carcinoma is the third most common gastrointestinal malignancy worldwide and is generally unresponsive to therapy. African Americans have an increased risk for esophageal squamous cell cancer (ESCC), the subtype that shows marked variation in geographic frequency. To identify key genes involved in ESC carcinogenesis in African Americans we conducted microarray expression profiling and found a significant dysregulation of genes encoding stress response and drug-metabolizing enzymes, mainly in NRF2 pathway. more...
Organism:
Homo sapiens
Type:
Expression profiling by array
Platform:
GPL570
14 Samples
Download data: CEL
Series
Accession:
GSE77861
ID:
200077861
16.

Transcriptomic analysis of the HOTAIR-regulated genes

(Submitter supplied) An integrated RNA sequencing transcriptomic and quantitative proteomic analysis were employed to systematically explore the regulatory role of HOTAIR in HCC. A total of 673 transcripts and 298 proteins were identified to be dysregulated after HOTAIR inhibition.
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL11154
6 Samples
Download data: TXT
17.

Long non-coding RNA HOTAIR is expressed in small cell lung cancer and is relevant to cellular proliferation, invasiveness and clinical relapse: tissue and cell-line analyses

(Submitter supplied) LincRNA HOTAIR was expressed in pure SCLC and higher expression was significantly related to lymphatic invasion and relapse. Multivariate analyses demonstrated that HOTAIR expression correlated with RFS. In vitro experiments demonstrated that half of SCLC cell lines expressed HOTAIR at higher levels than normal cells and that, using cells of SBC-3, knockdown of HOTAIR decreased proliferative activity and cellular invasiveness with altered expression of cell adhesion-related genes.
Organism:
Homo sapiens
Type:
Expression profiling by array
Platform:
GPL13607
2 Samples
Download data: TXT
Series
Accession:
GSE43877
ID:
200043877
18.

Global gene expression profiling and validation in esophageal squamous cell carcinoma (ESCC)

(Submitter supplied) Esophageal squamous cell carcinoma (ESCC) is an aggressive tumor with poor prognosis. Understanding molecular changes in ESCC should improve identification of risk factors in molecular subtypes and provide potential targets for early detection and therapy. To better characterize molecular changes in ESCC, we followed up a previous cDNA array study with additional discovery and confirmatory studies in new ESCC cases using alternative methods. more...
Organism:
Homo sapiens
Type:
Expression profiling by array
Platforms:
GPL97 GPL96
208 Samples
Download data: CEL
Series
Accession:
GSE23400
ID:
200023400
19.

Profiling of Lsd1 and chromatin marks in epithelial cells overexpressing HOTAIR variants

(Submitter supplied) Epithelial-to-mesenchymal transitions (EMT) underlie a loss of epithelial traits by normal cells during development and neoplastic cells during cancer metastasis. The long noncoding RNA HOTAIR triggers EMT, in part by serving as a scaffold for Polycomb Repressive Complex 2 (PRC2) and thus promoting repressive histone H3 Lys27 methylation. In addition to PRC2, HOTAIR interacts with the Lsd1 lysine demethylase, an epigenetic regulator of cell fate during development and differentiation. more...
Organism:
Homo sapiens
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL24676
40 Samples
Download data: GFF
Series
Accession:
GSE162937
ID:
200162937
20.

HOTAIR lncRNA role in epithelial-mesenchymal transition

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Homo sapiens
Type:
Genome binding/occupancy profiling by high throughput sequencing; Expression profiling by high throughput sequencing
Platforms:
GPL16791 GPL24676
68 Samples
Download data: TXT
Series
Accession:
GSE106517
ID:
200106517
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