Browse
Submit Data
Databases
API
Help

Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Transcription profiling by array of human renal proximal tubular cells of young or senescent replicative age; or high or low reactive oxygen species.

ABSTRACT: Renal Proximal Tubular Cells of young / senescent replicative age or high / low reactive oxygen species content were profiled using an Affymetrix Chip Platform.
Sample classifications:
Young refers to the in vitro age of early passage cells.
Senescent indicates cells at the end of their in vitro life span, having entered an irreversible growth arrest.
SortHI refers to cells with high intracellular reactive oxygen species content that were sorted by FACS according to a bright FL1 fluorescence after staining with 1 ï¾µM CM-H2DCFDA (Molecular Probes Cat No C6827).
SortLO refers to cells with low intracellular reactive oxygen species content that were sorted by FACS according to a dim FL1 fluorescence after staining with 1 ï¾µM CM-H2DCFDA.

ORGANISM(S): Homo sapiens

SUBMITTER: Matthias Hackl

PROVIDER: E-MEXP-2683 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Similar Datasets

Transcription profiling of rat heart transplants from Lewis to Lewis and Lewis to F344 strains with and without cold storage / prolonged cold ischemia.

Project description: Annual heart allograft failure in humans rates about 3-5%. The main reason after the first postoperative year is chronic rejection. Myointimal hyperplasia, the hellmark of chronic rejection, results in a specific type of ischemic heart disease. The lack of angina pectoris symptoms allow ventricular arrythmias, sudden cardiac death or heart failure to occur without warning. In addition, diagnostic tools such as endomyocardial biopsy, coronary angiography or intracoronary ultrasound fail to predict the individual risk for myocardial dysfunction. The mechanisms responsible for chronic rejection are predominantly alloimmune mediated with activated T cells, macrophages, B cell mediated antibody formation and secreted cytokines responding to HLA and other endothelial cell antigens. In addition, non immunologic risk factors such as recipient age, metabolic factors, hypertension and ischemia contribute to development of this disease. Previous studies have demonstrated that ischemia has a profound influence on short term allograft survival but the underlaying mechanisms remain largely unknown. Apoptosis seems to play a crucial role in ischemia/reperfusion injury and several mechanisms for programmed cell death have been described. However, consequences on long term cell function of viability have not been investigated. The aim of this study was to investigate the implication and the mechanism of prolonged cold organ storage as a non immunologic risk factor in the pathogenesis of chronic rejection in a cardiac allograft model. We aimed for answering the following specific questions: How does cold ischemia affect the alloimmue response short and long term? How does prolonged cold ischemia affect gene expression at later time points after transplantation? Does it influence gene expression during chronic rejection?

2010-10-13 | E-MEXP-2301 | biostudies-arrayexpress

Transcription profiling of maize to identify gene expression changes after chilling for 4 hours (alarm phase)

Project description:This experiment evaluates quick (alarm) response to chilling in chilling-sensitive maize plants. Maize inbred line cm109 were grown in optimal conditions until third leaf was fully developed. At this stage plants were divided into three experimental variants: k0 - control plants, frozen at the beginning of daylight, k4 - control plants kept in the same conditions and frozen after 4 hours since beginning of daylight, c4 - plants kept in 14 deg. C for 4 hours since "dawn". At the mentioned moments, leaves were harvested and frozen in liquid nitrogen for RNA isolation.

2009-11-01 | E-MEXP-1875 | biostudies-arrayexpress

Transcription profiling by array of Lotus japonicus leaves from wild type and Ljgln2-2 mutant plants exposed to drought.

Project description:L. japonicus (Regel) Larsen cv, Gifu were initially obtained from Prof. Jens Stougaard (University Aarhus, Denmark) and then self-propagated at the University of Seville. Ljgln2-2 mutant was isolated from photorespiratory mutant screening as described previously (Orea et al., 2002; Mï¿½rquez et al., 2005; Betti et al., 2006). The mutant progeny of two consecutive back-crosses with WT was used for the present work. WT and mutant seeds were scarified and surface-sterilized, germinated in 1% agar Petri dishes, and transferred to pots using a 1:1 (v/v) mixture of vermiculite and sand as solid support. Five seedlings were planted in each pot and grown during 35 days in a growth chamber under 16/8 hours day/night, 20/18ï¿½C, with a photosynthetic photon flux density of 250 ï¿½mol/m2ï¿½s and a constant humidity of 70%. CO2 was automatically injected to a final concentration of 0.7% (v/v), to allow for normal growth of Ljgln2-2 mutant in a photorespiration suppressed atmosphere. Plants were watered with Hornum nutrient solution (Handberg & Stougaard, 1992). Drought was applied withholding irrigation for the reported period of time and sample plants or leaves were harvested for further analysis.

2011-04-29 | E-MEXP-2690 | biostudies-arrayexpress

Transcription profiling of mouse heart tissue from animals exposed to mainstream tobacco smoke

Project description:Male C57B1/CBA mice were exposed to mainstream tobacco smoke (MTS) from two cigarettes daily, 5 days/week for 6 or 12 weeks. Mice were sacrificed immediately, or six weeks following, the last cigarette. High density DNA microarrays were used to characterize global gene expression changes in whole heart. Western blot and ELISA assays were used to determine levels of Cyp1A1 protein in heart microsomes and total and active PAI-1 protein from tissue extracts.

2008-12-25 | E-MEXP-1553 | biostudies-arrayexpress

MicroRNA profiling of human renal tubular epithelial cells - miR-17 and miR-19b to investigate their down-regulatation in human aging

Project description:Renal Tubular Epithelial Cells (RPTEC) from two donors were cultivated in vitro until irreversible growth arrest was observed. Total RNA from young (replicating) as well as growth arrested cells was harvested and hybridized to LNA based microRNA microarrays using a looped design. After data processing, differential expression of miRNAs in senescent vs. young RPTEC cells was calculated.

2010-04-19 | E-MEXP-2393 | biostudies-arrayexpress

shRNA profiling of human T-ALL cell lines - inhibition of TAL1 and NKX3.1 in T-ALL

Project description:We decreased TAL1 and NKX3.1 proteins levels using lentiviral deliveries of shTAL1 and shNKX3.1 in TAL1 expressing human T-ALL cell lines. Growth curves of cell lines showed that reduced TAL1 and NKX3.1 expressions resulted in a first phase where the number of cells did not increase likewise the shCTL expressing cells. To identify TAL1 and NKX3.1 target genes involved in T-ALL cell growth, we performed gene expression profiling of cell lines expressing shTAL1, shNKX3.1 or shCTL after two and three days of culture.

2010-05-12 | E-MEXP-2197 | biostudies-arrayexpress

Transcription profiling of mouse liver from animals overexpressing lymphotoxin alpha and beta with concomitant hepatocyte-specific knock-out of the IKK-beta gene vs. wild types

Project description:Experimental Description Mice overexpressing lymphotoxin alpha and beta, mice overexpressing lymphotoxin alpha and beta with concomitant hepatocyte-specific knock-out of the IKK-beta gene, and wild type C57BL/6 mice were sacrificed at 3 and 9 months of age, resp. From the respective livers, mRNA was extracted and whole genome transcription profiling was conducted with hybridization on day 1,2 or 3.

2009-07-21 | E-MEXP-1998 | biostudies-arrayexpress

Transcription profiling by array of Ovis aries Iymph node and spleen from animals infected by brain homogenate.

Project description:Spleen samples from five sheep (3 diseased and 2 control) were used on 10 chips. Lymph node samples from five sheep (3 diseased and 2 control) were used on 10 chips.

2010-04-01 | E-MEXP-2565 | biostudies-arrayexpress

Transcription profiling of mouse ATCC CRL1606 hybridoma cells to evaluate microarray gene identification methods using spike-in experiments

Project description:Due to the lack of controlled microarray experimental data, evaluation of gene identification methods has been performed using simulated/manipulated data. As the ability of these approaches to mimic actual experimental data is questionable, conclusions drawn can be misleading. We applied spike-in approaches to develop experimental benchmark data and used it to evaluate various gene identification methods. mRNA was obtained from mouse ATCC CRL1606 hybridoma cells. From self hybridization results 200 genes that consistently exhibited a log ratio value close to 0 were randomly selected across a range of intensity. In-vitro transcripts of these 200 genes were obtained from their respective clones. From RNA gel electrophoresis and test array results, 169 of the 200 transcripts were deemed successful. Experiments were then conducted by spiking these 169 transcripts to the common pool of mRNA extracted from the hybridoma cells. With exception of the spiked in genes, the experimental set-up is identical to a self hybridization. This experiment is thus different from other microarray experiments as the set of differentially expressed genes is known as they have been artificially created.

2005-03-17 | E-MEXP-280 | biostudies-arrayexpress

Transcription profiling of human BJ fibroblasts after LIN-9 depletion by a shRNA

Project description:Aim: identification of differentially expressed genes after LIN-9 depletion. hTERT immortalized human BJ fibroblasts were infected with pMSCV-Blasticidin based retroviruses encoding a shRNA which targets human LIN-9 and the empty vector respectively. After 4 days of selection total RNA was isolated. Cy3 and Cy5 labelled cDNA probes were generated using the CyScribe Post-labelling Kit (Amersham Biosiences).

2006-11-23 | E-MEXP-752 | biostudies-arrayexpress

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

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