Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Hypermethylation of CpG Islands and Shores adjacent to mirtron and microRNA genes in bladder cancer

ABSTRACT: We examined mirtron and miR expression in bladder cancer cell line following DNA Methyltransferase inhibition and normal urothelium using human Agilent microRNA microarrays.

ORGANISM(S): Homo sapiens

PROVIDER: GSE22380 | GEO | 2011/02/17

SECONDARY ACCESSION(S): PRJNA127633

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

Hypermethylation of CpG Islands and Shores adjacent to mirtron and microRNA genes in bladder cancer

Project description:We examined mirtron and miR expression in bladder cancer cell line following DNA Methyltransferase inhibition and normal urothelium using human Agilent microRNA microarrays. Bladder cancer cell lines (EJ, RT4 and RT112) were treated with 5-azacytidine ''Aza'' (2uM) for 5-7 days and normal urothelium (NHU) were subjected for microRNA microarray analysis. Analysis were performed in triplicates or more.

2011-02-17 | E-GEOD-22380 | biostudies-arrayexpress

Rat-bladder-OAB - Proteomic analysis of urothelium of rats with detrusor overactivity induced by bladder outlet obstruction

Project description:Overactive bladder (OAB) syndrome is a condition that has four symptoms: urgency, urinary frequency, nocturia, and urge incontinence and negatively affects a patient’s life. Recently, it is considered that the urinary bladder urothelium is closely linked to pathogenesis of OAB. However, the mechanisms of pathogenesis of OAB at the molecular level remain poorly understood, mainly as a result of lack of modern molecular analysis. The goal of this study is to identify a potential target protein that could act as a predictive factor for effective diagnosis and aid in the development of therapeutic strategies for the treatment of OAB syndrome. We produced OAB in a rat model and performed the first proteomic analysis on the mucosal layer (urothelium) of the bladders of normal and OAB rats.

2018-02-09 | PXD007571 | Pride

Retrotransposition creates sloping shores: a graded influence of hypomethylated CpG islands on flanking CpG sites.

Project description:Long interspersed elements (LINEs), through both self-mobilization and trans-mobilization of short interspersed elements and processed pseudogenes, have made an indelible impact on the structure and function of the human genome. One consequence is the creation of new CpG islands (CGIs). In fact, more than half of all CGIs in the genome are associated with repetitive DNA, three-quarters of which are derived from retrotransposons. However, little is known about the epigenetic impact of newly inserted CGIs. We utilized a transgenic LINE-1 mouse model and tracked DNA methylation dynamics of individual germline insertions during mouse development. The retrotransposed GFP marker sequence, a strong CGI, is hypomethylated in male germ cells but hypermethylated in somatic tissues, regardless of genomic location. The GFP marker is similarly methylated when delivered into the genome via the Sleeping Beauty DNA transposon, suggesting that the observed methylation pattern may be independent of the mode of insertion. Comparative analyses between insertion- and non-insertion-containing alleles further reveal a graded influence of the retrotransposed CGI on flanking CpG sites, a phenomenon that we described as "sloping shores." Computational analyses of human and mouse methylomic data at single-base resolution confirm that sloping shores are universal for hypomethylated CGIs in sperm and somatic tissues. Additionally, the slope of a hypomethylated CGI can be affected by closely positioned CGI neighbors. Finally, by tracing sloping shore dynamics through embryonic and germ cell reprogramming, we found evidence of bookmarking, a mechanism that likely determines which CGIs will be eventually hyper- or hypomethylated.

| S-EPMC4509998 | biostudies-literature

Gene expression data of iPS clones before bladder urothelium differentiation

Project description:We developed a method for the directed differentiation of hiPSCs into mature stratified bladder urothelium.

2019-07-30 | GSE131371 | GEO

Single cell transcriptomes of mouse bladder urothelium uncover novel cell type markers and urothelial differentiation characteristics.

Project description:Objectives: Much of the information to date in terms of subtypes and function of bladder urothelial cells were derived from anatomical location or by the expression of a small number of marker genes. To have a comprehensive map of the cellular anatomy of bladder urothelial cells, we performed single-cell RNA-sequencing to thoroughly characterize mouse bladder urothelium. Materials and methods: A total of 18,917 single cells from mouse bladder urothelium was analyzed by unbiased single-cell RNA sequencing. The expression of the novel cell marker was confirmed by immunofluorescence using urinary tract infections models. Results: Unsupervised clustering analysis identified 8 transcriptionally distinct cell subpopulations from mouse bladder urothelial cells. We discovered a novel type of bladder urothelial cells marked by Plxna4 that may be involved with host response and wound healing. We also found a group of basal-like cells labeled by ASPM that could be the progenitor cells of adult bladder urothelium. ASPM+ urothelial cells are significantly increased after injury by UPEC. In addition, specific transcription factors were found to be associated with urothelial cell differentiation. At the last, a number of interstitial cystitis/bladder pain syndrome-regulating genes were found differentially expressed among different urothelial cell subpopulations. Conclusions: Our study provides a comprehensive characterization of bladder urothelial cells, which is fundamental to understanding the biology of bladder urothelium and associated bladder disease.

2020-12-12 | GSE163029 | GEO

Genome-wide analysis of gene expression in cancerous and normal human bladder tissues

Project description:Analysis of differential gene expression in urothelium cancer cells compared to healthy bladder cells. The goal of researh was to discover any differences in signaling pathways regulation between cancer and normal cells and searching potential molecular markers for early cancer diagnostics. Total RNA was isolated from 9 cancerous tissue samples obtained during cystectomy and 3 normal bladder tissue samples obtaind post mortem from donors without bladder cancer.

2013-11-20 | E-GEOD-52519 | biostudies-arrayexpress

Deciphering epigenetic and transcriptional alterations after Kmt2c/2d knock-out in mouse bladder urothelial cells

Project description:KMT2C and KMT2D are two of the most frequently mutated genes in histologically normal human bladder urothelium. In this study, we sought to model Kmt2c/d LOF mutations and investigate the biological mechanism of Kmt2c/d LOF mutations in bladder cancer development.

2024-08-09 | GSE180947 | GEO

Bladder cancer vs. adjacent normal tissue

Project description:Total RNA from 10 bladder tumors were pooled and labeled with Cy5. Total RNA from 10 matched adjacent normal tissues were pooled and labeled with Cy3.

2009-03-11 | E-MEXP-1917 | biostudies-arrayexpress

Gene activity induced by denervation in the rat urinary bladder [miRNA]

Project description:Bilateral freezing of the pelvic ganglia in female rats were performed to denervate the urinary bladder. Sham operated rats were used as controls. The rats were sacrificed 10 days after surgery. The urinary bladders (including the urothelium) were frozen and used for RNA extraction.

2018-03-10 | GSE104539 | GEO

Gene activity induced by denervation in the rat urinary bladder [mRNA]

2018-03-10 | GSE104538 | GEO