Browse
Submit Data
Databases
API
Help

Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

7 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

MicroRNA expression from ARPE-19 cells: control and PDTC treated.

ABSTRACT: The cultured cell line ARPE-19 is frequently employed in studies of rpe function. Here we have identified the microRNAs expressed in RPE cells in the presence and absence of PDTC (pyrrolidine dithiocarbamate), an antioxidant. Analysis used microrNA extracted from untreated cells as a control for cells treated with PDTC

ORGANISM(S): Homo sapiens

SUBMITTER: Cynthia Jawoski

PROVIDER: E-GEOD-23107 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Publications

MicroRNA expression in human retinal pigment epithelial (ARPE-19) cells: increased expression of microRNA-9 by N-(4-hydroxyphenyl)retinamide.

Kutty R Krishnan RK Samuel William W Jaworski Cynthia C Duncan Todd T Nagineni Chandrasekharam N CN Raghavachari Nalini N Wiggert Barbara B Redmond T Michael TM

Molecular vision 20100804

<h4>Purpose</h4>MicroRNAs (miRNAs) are important regulators of many cellular functions due to their ability to target mRNAs for degradation or translational inhibition. Previous studies have reported that the expression of microRNA-9 (miR-9) is regulated by retinoic acid and reactive oxygen species (ROS). We have previously shown that N-(4-hydroxyphenyl)-retinamide (4HPR), a retinoic acid derivative, induces ROS generation and apoptosis in cultured human retinal pigment epithelial (RPE) cells, k ...[more]

PMID: 20806079

Similar Datasets

MicroRNA expression from ARPE-19 cells: control and PDTC treated.

Project description:The cultured cell line ARPE-19 is frequently employed in studies of rpe function. Here we have identified the microRNAs expressed in RPE cells in the presence and absence of PDTC (pyrrolidine dithiocarbamate), an antioxidant.

2010-07-24 | GSE23107 | GEO

microRNA expression during skeletal muscle differentiation and exercse in skeletal muscle.

Project description:To investigate microRNAs related to mitochondria biogenesis in skeletal muscle, microRNA expressions during skeletal muscle differentiation and exercise were analyzed in vivo and in vitro. Murine skeletal muscle cell (C2C12) were assigned to undifferentiated, differentiated, and passively stretched (exercise mimicked). C57BL/6S mice were assigned to resting, acute exercise (1day), and chronic exercise (7days). Low molecular weight RNA (< 200 nucleotides) was isolated from C2C12 cell or tibialis anterior muscle of mice and hybridized to Ncode microRNA microarrays. The experiment was performed using a loop design for the data analysis.

2011-05-14 | E-GEOD-29286 | biostudies-arrayexpress

Genome-wide analysis of perinatal effect of NF-kabbaB inhibition by pyrrolidine dithiocarbamate (PDTC) on the kidneys of Fawn-Hooded Hypertensive (FHH) rats at ages 2 days, 2 weeks and adult

Project description:Microarray was performed on kidneys of Fawn-Hooded Hypertensive (FHH) rats in order to elucidate the so-called "beneficial" effect of perinatal treatment with PDTC. In total, 59 samples were used. At least 4 rats per treatment groups. 2d, 2w and adult rats with or without PDTC treatment. Total 12 groups.

2014-06-15 | E-GEOD-57066 | biostudies-arrayexpress

DNA microarray analysis of the anti-inflammatory effects of PDTC on IL-6 signaling in HepG2 cells

Project description:Interleukin-6 (IL-6) is a proinflammatory cytokine that exerts a wide range of cellular, physiological and pathophysiological responses. Pyrrolidine dithiocarbamate (PDTC) antagonizes the cellular responsiveness to IL-6 through impairment in STAT3 activation and downstream signaling. Here, a transcriptional profiling was conducted as a basis for understanding the biological properties of PDTC in human HepG2 hepatocarcinoma cells. A global comparison of mRNA identified a highly significant difference of dysregulated gene expression transduced by PDTC versus IL-6 in HepG2 cells. Through an unbiased pathway analysis method, we have uncovered the mammalian target of rapamycin (mTOR) pathway together with rapid and dynamic alterations in REDD1 (regulated in development and DNA damage response 1) expression as one of the underlying molecular mechanisms responsible for IL-6 resistance to PDTC. Quantitative PCR and Western blot analyses validated the microarray data by showing the reciprocal pattern of REDD1 expression and subsequent mTOR inhibition after stimulation with PDTC relative to IL-6. The HepG2 human hepatocarcinoma cell line (American Type Culture Collection) was routinely grown and maintained in Minimum Eagle's medium (MEM)/F12 (1:1) supplemented with 10% heat-inactivated fetal bovine serum, 50 units/ml penicillin and 50 ug/ml streptomycin under standard cell culture conditions at 37Â°C and 5% CO2 in a humid environment. Cells were seeded in 35- or 60-mm dishes and grown to ~90% confluence after which they were serum starved for 4 h followed by the addition of either vehicle, PDTC (50 ÂµM) or human recombinant IL-6 (20 ng/ml) for 2 replicates, labeled a and b, of the 5 time points: 0hr, 1hr, 2hr, 4hr and 8hr.

2012-01-05 | E-GEOD-14632 | biostudies-arrayexpress

Sirt1-microRNA profile

Project description:Sirt1, a NAD-dependent deacetylase, has been shown involved in many complex biological functions. We previously demonstrated that Sirt-1 gain of function is neuroprotective in a model of neurodegenenration. We recently found that Sirt1 loss of function (Sirt1Î mouse) impairs learning, memory, and synaptic plasticity. We used microarray screening to identify potential miRNAs that may be regulated by Sirt1 and ivolved in learning and memory. Total RNA from the hippocampus of SIRT1Î and control mice was extracted and used for microRNA expression level evaluation. Two group experiment, in duplicates. Each sample is compared to a common reference sample, comprised of an equal mixture of all 4 experimental samples.

2010-07-29 | E-GEOD-22530 | biostudies-arrayexpress

Transcription profiling of Strongyloides ratti response to environmental factors ex vivo

Project description:Strongyloides ratti is a parasitic nematode of rats and a laboratory model for nematode infection more generally. The aim of this experiment was to determine the gene expression response of parasitic females to abiotic factors in its environment ex vivo that may be relevant to its natural environment in the gut in vivo. Thus, we used cDNA arrays to assay transcriptional responses to high and low salt, to RPMI versus PBS media and to 37C versus 40C. A moderate number of gene expression changes were observed.

2009-09-03 | E-MAXD-52 | biostudies-arrayexpress

Transcription profiling of Strongyloides ratti to host immunity

Project description:Strongyloides ratti is a parasitic nematode of rats and a laboratory model for nematode infection more generally. The response of two lines of S. ratti were compared in contrasting immunological environments: (i) day 5 post infection (p.i.) in naive rats; (ii) day 12 p.i. in naive rats; day 5 p.i. in rats previously immunised with 10 iL3s; and day 12 p.i. in rats previously immunised with 10 iL3s. The gene expression response of parasitic females were assayed using cDNA microarrays. Large numbers of responding genes were found (but with modest fold changes) and clusters of co-expressed genes identified with differences observed between worms taken from naive and previously exposed hosts and from the two time points.

2009-09-03 | E-MAXD-53 | biostudies-arrayexpress

Transcription profiling of Strongyloides ratti life-history traits

Project description:Strongyloides ratti is a parasitic nematode of rats and a laboratory model for nematode infection more generally. Selected lines were generated over the course of 20 - 30 generations such that eggs were harvested either at the beginning or towards the end of an infection, termed 'fast' and 'slow' lines, respectively. Phenotypic differences in these lines in their fecundity and response to host immunity were observed. The gene expression response of these lines in both permissive and restrictive immune environments were assayed using cDNA microarrays. Large numbers of responding genes were found (but with modest fold changes) and clusters of co-expressed genes identified. Genes exhibiting female-biased expression responded to host immunity, consistent with increased investment into transmission in restrictive immune environments.

2009-09-03 | E-MAXD-54 | biostudies-arrayexpress

Proteomic analysis of S-acylated proteins in human retinal pigment epithelial cells reveals the role of palmitoylation of Niemann–Pick type C1 protein in cholesterol transportation

Project description:Palmitoylation is a dynamic process which regulates the activity of the modified proteins. Retinal pigment epithelial (RPE) cells play pivotal roles in visual cycle and maintaining healthy photoreceptor cells. Dysfunctional RPE cells are often associated with degenerative retinal diseases. The aim of the study was to identify potentially palmitoylated proteins in human RPE cells. By using the detergent-resistant membrane, we found 312 potentially palmitoylated peptides which corresponded to 192 proteins in RPE cells, including 60 new candidate proteins which were not reported before. Gene enrichment analysis highlighted significant involvement of the palmitoylated proteins in lipid transporter activity and receptor-mediated endocytosis, among others. We further studied the effect of 3 potential palmitoylation sites (Cys 799, 900 and 816) of Niemann–Pick type C1 protein (NPC1) on cholesterol accumulation. We found that mutation of any single Cys alone had no significant effect on intracellular cholesterol accumulation while simultaneous mutation of Cys 799 and 800 caused significant cholesterol accumulation in late endosome. No further cholesterol accumulation was observed by adding another mutation at Cys 816. At the meantime, the mutated proteins were largely located at the endosome/lysosome. Conclusions: PRE cells have abundant number of palmitoylated proteins which are involved in cellular processes critical to visual function. The palmitoylation at Cys799 and 800 was needed for cholesterol transportation, but not the intracellular localization of NPC1.

2023-03-10 | PXD034896 | Pride

DNA microarray analysis of the anti-inflammatory effects of PDTC on IL-6 signaling in HepG2 cells

2012-01-05 | GSE14632 | GEO

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data