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 of yeast Gcn4 and Arr1 deletion mutant as well as Gcn4 Arr1 double deletion mutant.

ABSTRACT: Transcription profiling of wild type yeast strain as well as strains carrying a deletion of Gcn4, Arr1 or both. Gene expression in rich medium (YPD) and under osmotic stress conditions (YPD + 0.8M NaCl) was compared.

ORGANISM(S): Saccharomyces cerevisiae

SUBMITTER: Martin Seizl

PROVIDER: E-MEXP-3566 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Publications

One Hand Clapping: detection of condition-specific transcription factor interactions from genome-wide gene activity data.

Dümcke Sebastian S Seizl Martin M Etzold Stefanie S Pirkl Nicole N Martin Dietmar E DE Cramer Patrick P Tresch Achim A

Nucleic acids research 20120725 18

We present One Hand Clapping (OHC), a method for the detection of condition-specific interactions between transcription factors (TFs) from genome-wide gene activity measurements. OHC is based on a mapping between transcription factors and their target genes. Given a single case-control experiment, it uses a linear regression model to assess whether the common targets of two arbitrary TFs behave differently than expected from the genes targeted by only one of the TFs. When applied to osmotic stre ...[more]

PMID: 22844089

Similar Datasets

Expression data of Arabidopsis seedlings in response to ARR1 or cytokinins, in the presence and absence of DELLA proteins

Project description:DELLA proteins interact with ARR1 and modulate its activity. We have investigated the effect of DELLA proteins on transcriptional regulation by ARR1 A dominant hyperactive allele of ARR1 was induced with dexamethasone in seedlings preincubated with paclobutrazol (allowing DELLA acummulation) or paclobutrazol+GA3 (promoting DELLA degradation)

2015-06-13 | E-GEOD-69828 | biostudies-arrayexpress

Transcription profiling of Arabidopsis Col-0 plants with wild type, arr1-1 knock-out, ARR1 over-expressor and ARR1-SRDX fusion protein over-expressor genotypes treated with 6-Benzyladenine for different lengths of time

Project description:Arabidopsis thaliana Col-0 plants and three other genotypes (ARR1 overexpressor, arr1-1 knockout, overexpressor of ARR1-SRDX fusion protein) were grown in liquid media (1/2 MS, 1 g/L sucrose, 0.5 g/L MES, pH 5.7) in a Percival AR-66L growth chamber at 24 oC, 16:8 h day:night cycle, and 100 µE light intensity until growth stage 1.0. Plants were then treated with 5 µM 6-Benzyladenine for 0, 15, and 120 min, harvested and frozen in liquid nitrogen for RNA extraction and subsequent processing for microarray hybridization.

2008-08-31 | E-MEXP-689 | biostudies-arrayexpress

Transcriptome sequencing of β-arr1 knockout DG astrocytes

Project description:WT and β-arr1-/- DG astrocytes with pooled cDNA library were sequenced.

2017-02-09 | GSE66471 | GEO

Next Generation Sequencing Facilitates Quantitative Analysis of Wild Type, arr1, and AOE Transcriptomes

Project description:Purpose: The goals of this study are to identify the downstream regulated genes of ARR1. Methods: RNA was extracted from wild-type, arr1 single mutant, and AOE root explants at the nascent SAM formation stage. Library construction and RNA-Seq were performed by Biomarker Co. (www.biomarker.com.cn, Beijing, China). DESeq and the Q value were used to identify differentially transcribed genes (DTGs). Differential transcription was inferred by applying a false discovery rate threshold of 0.001 and the |log2 Ratio| ≥ 1. Functional categorization was inferred from a BLAST search of the non-redundant GenBank (http://www.ncbi.nlm.nih.gov/genbank/), KEGG Pathway (http://www.genome.jp/kegg/pathway.html), and UniProt protein databases (http://www.uniprot.org/), and was further analyzed by the Gene Ontology (http://geneontology.org/) method. Results: In the transcriptomes of arr1 vs. wild-type explants, we detected 177 up- and 260 downregulated DTGs, and in the AOE vs. wild-type transcriptomes, we detected 129 and 6 DTGs, respectively. The pathways involved in hormone signal transduction and indole alkaloid synthesis were well represented among the DTGs in arr1 vs. wild type. These DTGs also included genes involved in auxin transport and signaling, as well as IAA17, an Aux/IAA repressor gene, which was downregulated in arr1 root explants. Conclusions: Our study showed that IAA17 was downstream gene of ARR1 in root explants.

2020-03-10 | GSE146690 | GEO

Identification of ARR1 targets in the root of Arabidopsis thaliana

Project description:We performed a chromatin immunoprecipitation-based microarray experiment (ChIP chip) in order to identify ARR1 direct target genes

2017-08-21 | GSE70595 | GEO

Expression data of Arabidopsis seedlings in response to ARR1 or cytokinins, in the presence and absence of DELLA proteins

Project description:DELLA proteins interact with ARR1 and modulate its activity. We have investigated the effect of DELLA proteins on transcriptional regulation by ARR1

2015-06-13 | GSE69828 | GEO

ARR1 regulated genes in the lateral root cap

Project description:We sorted for GFP+ cells using the enhancer trap line J2632 with the UAS promoter driving the expression of an inducible (by dexamethasone - Dex) constitutive active version of the ARR1 gene (ARR1ΔDDK). We obtained the transcriptional profile of lateral root cap cells

2019-03-19 | GSE117424 | GEO

MPK3/6-induced degradation of ARR1/10/12 promotes salt tolerance in Arabidopsis

Project description:Here we present a LC-MS/MS analysis on ARR1/10/12-His recombinant proteins that were phosphorylated by MPK3 and MPK6 in vitro

2021-07-23 | PXD027365 | Pride

ARR1 regulated genes in the lateral root cap

Project description:ARR1 regulated genes in the lateral root cap

| PRJNA482094 | ENA

The Arabidopsis type-B cytokinin response regulators ARR1, ARR10 and ARR12 negatively regulate plant responses to drought

Project description:To understand the role of the Arabidopsis type-B Response Regulators ARR1, ARR10 and ARR12 in water stress response, we have carried out comparative expression analysis of the arr1,10,12 mutant and WT plants under dehydration and well-watered (control) conditions. Agilent’s whole Arabidopsis Gene Expression Microarray (G2519F-021169, V4, 4x44K) was used.

2016-01-13 | GSE74880 | GEO

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