Browse
Submit Data
Databases
API
Help

Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

9 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Identification of mRNAs Regulated in Response to Transcriptional Activation of the Arabidopsis Abscisic Acid Insensitive Growth 1 (AIG1) Transcription Factor cDNA

ABSTRACT: Liquid grown, seven day old wild type Arabidopsis seedlings and seedlings carrying a cDNA encoding the Abscisic Acid Insensitive Growth (AIG1) gene under the control of an estrogen inducible promoter were treated with estrogen for 0, 60 and 120 minutes at which point seedlings were flash frozen and mRNA was extracted. Wild-type and ESTAIG1 Col samples were treated with estrogen and flash frozen 0, 60 and 120 minutes later. Each sample type has three biological reps, except ESTHAT22.120, which has two. There are therefore 17 total samples. mRNA samples were sequenced by Otogenetics and then analyzed using the Tuxedo suite of applications.

ORGANISM(S): Arabidopsis thaliana

SUBMITTER: Samuel Hokin

PROVIDER: E-GEOD-70100 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Similar Datasets

Identification of mRNAs Regulated in Response to Transcriptional Activation of the Arabidopsis ABA INSENSITIVE GROWTH 1 (ABIG1) Transcription Factor cDNA

Project description:Liquid grown, seven day old wild type Arabidopsis seedlings and seedlings carrying a cDNA encoding the ABA INSENSITIVE GROWTH 1 (ABIG1) gene under the control of an estrogen inducible promoter were treated with estrogen for 0, 60 and 120 minutes at which point seedlings were flash frozen and mRNA was extracted.

2016-06-22 | GSE70100 | GEO

Transcription targets of ASYMMETRIC LEAVES 2 (AS2), KANADI1 (KAN), REVOLUTA (REV) and SHOOT MERISTEMLESS (STM) genes

Project description:Dexamethasone applied to WT, GR-AS2, GR-KAN1, GR-REV and GR-STM seedlings and expression measured at 0, 30, 60 and 120 minutes after Dex application. SRA Series SRP051213 BioProject PRJNA258547. All reps are bio reps. Expression values are geometric normalized FPKM values from Tophat/Cufflinks reads and mappings.

2016-07-01 | E-GEOD-70796 | biostudies-arrayexpress

Transcription targets of ASYMMETRIC LEAVES 2 (AS2), KANADI1 (KAN), REVOLUTA (REV) and SHOOT MERISTEMLESS (STM) genes

Project description:Dexamethasone applied to WT, GR-AS2, GR-KAN1, GR-REV and GR-STM seedlings and expression measured at 0, 30, 60 and 120 minutes after Dex application.

2016-07-01 | GSE70796 | GEO

Fine scale time-series RNA-Seq of shoot and root responses to Nitrogen supply

Project description:Arabidopsis plants grown in a hydroponic media with sufficient Nitrogen were given a 60mM supply of Nitrogen. Triplicate sets of plants were sampled at time points 0,5,10,15,20,30,45,60,90 and 120 minutes after supply from treated and control plants (20mM KCl). The samples were flash frozen in liquid N and used to construct RNA-Seq libraries to assay transcriptional changes in the shoots and roots, separately, in response to Nitrogen.

2018-05-11 | GSE97500 | GEO

Phosphoproteomics of Human ACHN cells by estrogen

Project description:To find out the potential targets in response to estrogen treatment on ACHN cell, a human renal cell carcinoma (RCC) cell line. Since estrogen can repress ACHN growth in a partly estrogen receptor-dependent manner, it is possible that phosphorylation state in ACHN cells is regulated.

2016-04-26 | PXD001962 | Pride

Identification of cytoplasmic proteins interacting with unliganded estrogen receptor α and β- in human breast cancer cells

Project description:Estrogen Receptor subtypes (ERα and ERβ) are transcription factors sharing similar structure, however, they often perform opposite roles in breast cancer’s cell proliferation and tumor progression. Besides the well-characterized genomic actions of ERs upon ligand binding, rapid non-genomic cytoplasmic changes together with the recently discovered ligand-free action of ERs are emerging as key regulators of tumorigenesis. The identification of cytoplasmic interaction partners of unliganded ERα and ERβ may help characterize the molecular basis of the extra-nuclear mechanism of action of these receptors, revealing novel mechanisms to explain their role in breast cancer response or resistance to endocrine therapy. To this aim, in this study, cytoplasmic extracts from stably expressing TAP-ERα and -ERβ MCF-7 cell clones were subjected to interaction proteomics in the absence of estrogen stimulation, leading to the identification of 84 and 142 proteins associated with unliganded ERα and ERβ, respectively. Functional analyses of ER subtype-specific interactomes revealed significant differences in the molecular pathways associated to each receptor in the cytoplasm. This work reports the first identification of the unliganded ERα and ERβ cytoplasmic interactomes in breast cancer cells, providing novel experimental evidence on the non-genomic effects of ERs in the absence of hormonal stimulus.

2015-03-11 | PXD001202 | Pride

Transcription profiling by array of human MCF cells treated with estrogen

Project description:The estrogen receptor is the master transcriptional regulator of breast cancer phenotype and the archetype of a molecular therapeutic target. We mapped all estrogen receptor and RNA polymerase II binding sites on a genome-wide scale, identifying the authentic cis binding sites and target genes, in breast cancer cells. Combining this unique resource with gene expression data demonstrates distinct temporal mechanisms of estrogen-mediated gene regulation,particularly in the case of estrogen-suppressed genes. Furthermore, this resource has allowed the identification of cis-regulatory sites in previously unexplored regions of the genome and the cooperating transcription factors underlying estrogen signaling in breast cancer. Experiment Overall Design: This Series currently contains the gene expression data accompaning Carroll JS et al. Nature Genetics 38,1289-1297(2006). MCF7 cells were stimulated with 100 nM estrogen for 0, 3, 6, or 12h. All experiments were performed in triplicate.

2008-06-11 | E-GEOD-11324 | biostudies-arrayexpress

Estrogenic modulation of inflammation-related genes in male rats following volume overload

Project description:The purpose of this study was to determine whether estrogen had an effect on inflammation-related genes that contribute to this estrogen-mediated cardioprotection. Volume overload on the heart was induced by aortocaval fistula in 8 week old male Sprague Dawley rats and genes of interest in shams, fistula , and fistula +estrogen were identified using an inflammatory PCR array. Volume overload was induced in male rats treated with estrogen and non treated male rats to determine if inflammation-related genes contributed to estrogen-mediated cardioprotection.

2011-09-22 | E-GEOD-32296 | biostudies-arrayexpress

RNA-seq of Arabidopsis Col-0, snrk2.4, double snrk2.4/2.10 and quintuple snrk2.1/2.4/2.5/2.9/2.10 mutants from control (0mM) and salt stress (150mM NaCl for 1hour) treatment.

Project description:The purpose of this experiment was to investigate the downstream evens of Arabidopsis subclass 1 SnRK2 protein kinases signaling pathway. Seedlings were grown in 100 ml liquid media containing 0.5xMurashi-Skoog basal salt, 0.5% sucrose, 1% M.E.S. monohydrate, pH 5.8 (KOH) with shaking (120 rpm). Ten days-old seedlings were treated with 150 mM NaCl in 0.1xMS media (salt stress) or 0.1xMS media (control) for 1hour.

2019-07-11 | E-MTAB-8073 | biostudies-arrayexpress

Abiotic stress-response reprogramming events underlie successful initiation of apomixis

Project description:This experiment provides the gene expression data from seedlings of 2 different species from Boechera genus, (Boechera stricta - referred as Sex-1; Boechera gunnisoniana - referred as Apo-1 here). The main intent of the experiment is to identify expression changes in species which reproduce differently (Sexual vs apomixis) and at somatic stages (seedling) to identify mechanisms governing changes occurring in prior to reproduction stage as preparatory mechanism.

2017-05-01 | E-MTAB-4972 | biostudies-arrayexpress

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