Browse
Submit Data
Databases
API
Help

Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Transcription profiling by array of Arabidopsis wild type and RETINOBLASTOMA-RELATED (RBR) RNAi plants (late timepoints)

ABSTRACT: RNA was labeled and hybridized to ATH1 arrays.

ORGANISM(S): Arabidopsis thaliana

SUBMITTER: Lars Hennig

PROVIDER: E-TABM-919 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Publications

Arabidopsis RETINOBLASTOMA-RELATED is required for stem cell maintenance, cell differentiation, and lateral organ production.

Borghi Lorenzo L Gutzat Ruben R Fütterer Johannes J Laizet Yec'han Y Hennig Lars L Gruissem Wilhelm W

The Plant cell 20100604 6

Several genes involved in the regulation of postembryonic organ initiation and growth have been identified. However, it remains largely unclear how developmental cues connect to the cell cycle. RETINOBLASTOMA RELATED (RBR) is a plant homolog of the tumor suppressor Retinoblastoma (pRb), which is a key regulator of the cell cycle. Using inducible RNA interference (RNAi) against Arabidopsis thaliana RBR (RBRi), we reduced RBR expression levels at different stages of plant development. Conditional ...[more]

PMID: 20525851

Similar Datasets

Transcription profiling by array of Arabidopsis wild type and RETINOBLASTOMA-RELATED (RBR) RNAi plants (early timepoints)

Project description:RNA was labeled and hybridized to ATH1 arrays.

2010-12-14 | E-TABM-918 | biostudies-arrayexpress

Transcription profiling of Arabidopsis thaliana leaves grown in different laboratories

Project description:Arabidopsis plants were grown in 6 laboratories, and RNA was labeled and hybridized to AGRONOMICS1 arrays.

2010-03-04 | E-TABM-917 | biostudies-arrayexpress

Transcription profiling by array of Arabidopsis seeds from fis2 and wild type plants

Project description:At 3 days after pollination, RNA was extracted from seeds of WT and fis2 mutants, labeled and hybridized to ATH1 arrays.

2010-12-14 | E-TABM-1007 | biostudies-arrayexpress

Transcription profiling of Arabidopsis leaves and flowers labeled with three different kits and hybridized to AGRONOMICS1 arrays

Project description:RNA was labeled as technical replicates with three different kits and hybridized to AGRONOMICS1 arrays.

2010-03-02 | E-TABM-870 | biostudies-arrayexpress

Transcription profiling of Arabidopsis etiolated seedlings, light-treated seedlings, leaves and flowers hybridized to ATH1 and AGRONOMICS1 arrays

Project description:RNA from etiolated seedlings, light-treated seedlings, leaves and flowers was hybridized to ATH1 and AGRONOMICS1 arrays.

2010-01-01 | E-MEXP-2472 | biostudies-arrayexpress

Transcription profiling of pancreatic islet cells in wild type and von Hippel-Lindau tumor suppressor knock-out mice

Project description:Understanding the nature of the various glucose-derived signals for insulin secretion (both triggering and amplifying) is essential for gaining insight into the functional failure of the beta-cells in diabetes and the development of drugs for correcting this problem. The beta-cells uniquely couple changes in cellular metabolism to electrical activity and thus insulin release. In mice, beta-cell specific deletion of the von Hippel-Lindau (VHL) tumor suppressor protein leads to the activation of a HIF transcription program that includes genes involved in glycolysis, suppression of mitochondrial activity and lactate production. This reprogramming of cellular metabolism results in abnormal insulin secretion properties. Experiment Overall Design: Three batches of isolated islets from each genotype where used for RNA isolation and Affymetrix measurements.

2008-11-22 | E-GEOD-11484 | biostudies-arrayexpress

Comparison of adult intact naive C57Bl/6 Nogo-A KO versus WT spinal cord

Project description:Nogo-A localized on myelin adaxonal membrane in the adult CNS is well known for its role as neurite outgrowth inhibitor following a lesion. Nogo-A KO mice show enhanced regenerative/compensatory fiber growth following CNS lesion. However, changes undergoing in their intact CNS have not been studied. Moreover, Nogo-A in the intact adult CNS in also expressed in some neuronal subpopulations, e.g. in the hippocampus, olfactory bulbs and dorsal root ganglia. We compared the intact adult CNS (spinal cord) of Nogo-A KO mice in order to identify: potential compensating molecules which could be interesting new inhibitory neurite outgrowth candidates, possible molecules involved in the up to now not yet clarified downstream signalling pathway of Nogo-A, additional new functions for myelin or neuronal Nogo-A in the intact adult CNS. Keywords: gene expression, Nogo-A KO, spinal cord, adult, naive, unlesioned Spinal cords from 3 adult C57Bl/6 wild type and Nogo-A KO mice have been explanted. Total RNA has been extracted and processed for hybridization on Mouse 430 2.0 Affymetrix GeneChips. Following scanning and first analysis with MAS 5.0, further analysis was performed by GeneSpring 7.2 (Silicon Genetics, Redwood City, CA). A present call filter (2 out of 3 present calls in at least one out of the different studied conditions) was applied. Normalization was run per chip as well as per gene to the median of the control replicates. Data were statistical restricted through a 1-way Anova (p=0.05). A final threshold of =1.2 folds of increase or decrease in the expression level of each single transcript was applied. Regulated transcripts have been assigned to functional categories according to GeneOntology as well as literature and database mining (Pubmed and Bioinformatics Harvester EMBL Heidelberg).

2010-11-01 | E-GEOD-11276 | biostudies-arrayexpress

Transcription profiling of Drosophila NRF-2alpha/GABPalpha homologue delg mutants versus control reveals reduced expression of multiple genes encoding mitochondrial proteins

Project description:Nuclear transcription factors drive mitochondrial mass by regulating the expression of genes encoding mitochondrial proteins. Among these factors, nuclear respiratory factor 2 (NRF-2/GABP) has been proposed to be critical for mitochondrial mass in mammalian cells, yet there is little genetic evidence to support this function in vivo. Here, we show that mutants of the Drosophila melanogaster NRF-2alpha/GABPalpha homologue Delg (CG6338) have reduced expression of multiple genes encoding mitochondrial proteins, leading to reduced mitochondrial mass. Experiment Overall Design: Six samples were analyzed in total: three biological replicates of the control (Df_plus) and three biological replicates of the mutant (Df_delg).

2009-02-21 | E-GEOD-14058 | biostudies-arrayexpress

Transcription profiling of Drosophila Spargel mutant versus genetically matched wildtype control

Project description:Mammalian PGC-1alpha, PGC-1beta and PRC are structurally related transcriptional coactivators, and are involved in multiple metabolic functions, including the regulation of mitochondrial biogenesis. However, due to redundancy, their in vivo roles are still poorly understood. By a genome-wide microarray study, we show that in the Drosophila larval fat body, Spargel (CG9809), the only fly PGC-1 family homologue, is required for proper expression of multiple genes encoding mitochondrial proteins. Experiment Overall Design: Six samples were analyzed in total: three biological replicates of the control (wt) and three biological replicates of the mutant (KG).

2009-02-21 | E-GEOD-14780 | biostudies-arrayexpress

Transcription profiling of Drosophila Spargel mutants vs. controls to investigate the effect of Spargel on transcriptional changes mediated by the insulin-signalling pathway

Project description:Insulin signalling activity is well known to mediate transcriptional changes in response to nutrients and it is changed in the spargel mutant. We performed a genome-wide microarray study to investigate the role of Spargel as a transcriptional coregulator downstream of insulin receptor signalling. Experiment Overall Design: To investigate the effect of Spargel on transcriptional changes mediated by the insulin-signalling pathway we analyzed 12 samples in total: three biological replicates of the control with or without UAS-Inr (Inr_wt and ctrl_wt) and three biological replicates of the spargel mutant with or without UAS-Inr (Inr_KGand ctrl_KG).

2009-02-26 | E-GEOD-14779 | 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