GEO DataSets

(Submitter supplied) MicroRNAs are considered to be essential regulators during post-transcription in gene expression that mainly through repression mechanism to regulate target mRNAs. We generate expression data from profiling of 664 miRNA in 113 paired tumors and non-tumors of esophageal squamous carcinoma (ESCC), along with matched genome-wide mRNA gene expression data and extensive analysis association study with clinical viable. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platforms:

GPL96 GPL571 GPL570

226 Samples

Download data: CEL, TXT

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Homo sapiens

Type:

SNP genotyping by SNP array; Genome variation profiling by SNP array

Platforms:

GPL3720 GPL6804 GPL3718

152 Samples

Download data: CEL

(Submitter supplied) Since ESCC is a complex and heterogeneous disease, it is increasingly important that analyses combine the evaluation of alterations in DNA, including somatic copy number alterations (SCNA), which distinguished from germ line copy number variants, allelic imbalance and LOH, and RNA, including those that occur in both mRNA and miRNA on the same specimen. Thus, in order to better understand their potential interactions in the development of cancers, in the present study, we studied alterations at DNA level as well as expression of mRNA and target miRNA in tumors and their matched normal tissues from 56 ESCC cases on a candidate tumor suppressor gene CSMD1 to characterize there alterations in this gene for import insights into the cellular detect that cause the complex disease, ESCC.

Organism:

Homo sapiens

Type:

SNP genotyping by SNP array; Genome variation profiling by SNP array

Platforms:

GPL3718 GPL3720

80 Samples

Download data: CEL

(Submitter supplied) Since ESCC is a complex and heterogeneous disease, it is increasingly important that analyses combine the evaluation of alterations in DNA, including somatic copy number alterations (SCNA), which distinguished from germ line copy number variants, allelic imbalance and LOH, and RNA, including those that occur in both mRNA and miRNA on the same specimen. Thus, in order to better understand their potential interactions in the development of cancers, in the present study, we studied alterations at DNA level as well as expression of mRNA and target miRNA in tumors and their matched normal tissues from 56 ESCC cases on a candidate tumor suppressor gene CSMD1 to characterize there alterations in this gene for import insights into the cellular detect that cause the complex disease, ESCC.

Organism:

Homo sapiens

Type:

SNP genotyping by SNP array; Genome variation profiling by SNP array

Platform:

GPL6804

72 Samples

Download data: CEL

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Homo sapiens

Type:

Expression profiling by array

4 related Platforms

452 Samples

Download data: CEL

(Submitter supplied) ESCC is an aggressive tumor with about less than 20% 5-year survival rate, which is fourth worst among all cancers in the USA and the sixth leading cause of cancer mortality worldwide. miRNAs is an important layer of gene regulation that is able to integrate multiple genes into biologically networks.We previously characterized the profile of mRNA expression in ESCC [GSE44021]. In current study, we focused on the relationship of mRNA and miRNA using results from arrays in 113 cases from a high-risk region of China.

Organism:

Homo sapiens

Type:

Other

Platform:

GPL19823

226 Samples

Download data: TXT

(Submitter supplied) Chemotherapy resistance adversely impacts the treatment of some individuals with esophageal cancer. Identifying chemotherapy resistance might help tailor clinical treatments. In this study the impact of microRNAs on chemotherapy resistance in esophageal cancer was investigated. We used microarrays to detail the global programme of microRNA expression underlying chemotherapy resistance and identified distinct classes of up-regulated microRNAs in generated chemotherapy resistant cell lines.

Organism:

Homo sapiens; synthetic construct

Type:

Non-coding RNA profiling by array

Platform:

GPL8786

36 Samples

Download data: CEL

(Submitter supplied) MicroRNAs (miRNAs) are an endogenous conserved class of non-coding 20–22 nt small RNAs that regulate gene expression at post-transcriptional level by mostly binding to 3′-UTR of target mRNAs, leading to mRNA degradation or translation inhibition. Recent reports demonstrate a role for miRNA expression in the disease progression and outcome. By now, many researcher focusing on miRNA expression profiles in Barrett's esophagus and esophageal adenocarcinoma have been reported. more...

Organism:

Mus musculus; Human alphaherpesvirus 1; Human betaherpesvirus 5; Murid betaherpesvirus 1; Human immunodeficiency virus 1; Rattus norvegicus; human gammaherpesvirus 4; JC polyomavirus; Human gammaherpesvirus 8; Betapolyomavirus macacae; Homo sapiens; Murid gammaherpesvirus 4; Betapolyomavirus hominis

Type:

Non-coding RNA profiling by array

Platform:

GPL7723

6 Samples

Download data: GPR

(Submitter supplied) To further study molecular mechanisms involving ESCC development, we have employed miRNA microarray expression profiling as a discovery platform to identify miRNAs differentially expressed between ESCCs and NEs.

Organism:

Homo sapiens

Type:

Non-coding RNA profiling by array

Platform:

GPL24967

40 Samples

Download data: TXT

(Submitter supplied) Genome wide DNA methylation profiling of esophageal squamous cell carcinoma (ESCC) tumor and adjacent normal samples using the Illumina Infinium MethylationEPIC array to obtain DNA methylation profiles across approximately 850,000 CpGs. Data included pathologically confirmed 108 tumor and 51 normal samples

Organism:

Homo sapiens

Type:

Methylation profiling by genome tiling array

Platform:

GPL21145

159 Samples

Download data: TSV

(Submitter supplied) Transcriptomics analyses in these Zn-deficient rats revealed the molecular basis of ESCC abrogation by miR-31 knockout: Egln3, a negative regulator of NF-FB, was shown to be a direct miR-31 target; miR-31 inhibition/deletion resulted in suppression of miR-31-associated-EGLN3-NF-KB controlled inflammatory pathways.

Organism:

Rattus norvegicus

Type:

Expression profiling by array

Platform:

GPL1355

30 Samples

Download data: CEL

(Submitter supplied) We aimed to detect the mRNA expression levels in KYSE510 cells after transfection with NC RNA or DAZAP1 siRNAs.

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL11154

3 Samples

Download data: TXT

(Submitter supplied) We used cDNA microarray to study the gene expression profile between the tumor and non-tumor tissue samples from patients with esophageal cancer

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL570

3 Samples

Download data: CEL, CHP

(Submitter supplied) Tissue microRNAs (miRNAs) can detect cancers and predict prognosis. Several recent studies reported that tissue, plasma, and saliva miRNAs share similar expression profiles. In this study, we investigated the diagnostic value of salivary miRNAs (including whole saliva and saliva supernatant) for detection of esophageal cancer.

Organism:

Homo sapiens

Type:

Non-coding RNA profiling by array

Platform:

GPL10850

10 Samples

Download data: TXT

(Submitter supplied) About 30% of renal cell carcinoma (RCC) patients undergoing nephrectomy experience disease recurrence. This study aimed to profile microRNAs (miRNAs) that are dysregulated in clear cell RCC (ccRCC) tumor tissues and predictive of recurrence. The expression levels of 800 miRNAs were assessed in paired tumor and normal tissues from a discovery cohort of 18 ccRCC patients via the NanoString assay platform. more...

Organism:

Homo sapiens

Type:

Non-coding RNA profiling by array

Platform:

GPL25243

36 Samples

Download data: XLSX

(Submitter supplied) Sample labeling and array hybridization were performed according to the Agilent One-Color Microarray-Based Gene Expression Analysis protocol (Agilent Technology) with minor modifications. Briefly, mRNA was purified from total RNA after removal of rRNA (mRNA-ONLY™ Eukaryotic mRNA Isolation Kit, Epicentre). Then, each sample was amplified and transcribed into fluorescent cRNA along the entire length of the transcripts without 3' bias utilizing a random priming method (Arraystar Flash RNA Labeling Kit, Arraystar). more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL26963

8 Samples

Download data: TXT

(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

(Submitter supplied) Purpose: Epigenetic landscapes can shape physiologic and disease phenotypes. We used whole genome bisulfite sequencing, RNAseq, and ChIP-seq technologies to understand the methylome profiling, gene expression and regulation via epigenetic alterations on esophageal sequamouse carcinoma comparing to adjacent non-tumor tissues.

Organism:

Homo sapiens

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL20301

2 Samples

Download data: BED

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing; Methylation profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL20301

55 Samples

Download data: BED, TXT

(Submitter supplied) Purpose: Epigenetic landscapes can shape physiologic and disease phenotypes. We used whole genome bisulfite sequencing, RNAseq, and ChIP-seq technologies to understand the methylome profiling, gene expression and regulation via epigenetic alterations on esophageal sequamouse carcinoma comparing to adjacent non-tumor tissues.

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL20301

35 Samples

Download data: TXT