Browse
Submit Data
Databases
API
Help

Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

37 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Transcription profiling of tissue from different developmental stages and parts of Arabidopsis Col0 and Ler0 wild type and gcn2 mutant plants

ABSTRACT: 1- Comparison of the transcriptome of two ecotypes (Col0 and Ler0): compare the transcriptome of ColO versus Ler0 for different tissues and developmental stages (seedlings 7 days, shoot 14 days, flowers, leafs 35 days)
2- Impact of SINE RNA : Analyse the consequence of the expression of a SINE RNA in Arabidopsis thaliana
3- Impact of the gcn2 mutation : Impact of the gcn2 mutation on the Arabidopsis thaliana transcriptome. GCN2 is a kinase potentially regulated by the SINE non-coding RNA

INSTRUMENT(S): GenePix 4000A [Axon Instruments]

ORGANISM(S): Arabidopsis thaliana

SUBMITTER: Agnes YU

PROVIDER: E-MEXP-800 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Similar Datasets

Transcription profiling of wild type and Kdo Transferase mutant Arabidposis plants to investigate the effects on cell-wall biosynthesis

Project description:Comparison of RNA levels between wild type and a Kdo Transferase mutant in Arabidopsis thaliana. We are interested by the cell-wall biosyntheis in the Arabidopsis thaliana plants which are affected in Kdo biosynthesis.

2007-03-23 | E-MEXP-798 | biostudies-arrayexpress

Transcription profiling by array of Candida albicans to compare Gcn4 and Gcn2 regulons

Project description:comparison of the Gcn4 and Gcn2 regulons by transcript profiling

2010-05-13 | E-MEXP-1212 | biostudies-arrayexpress

Transcription profiling of Arabidopsis wild type, AtVdac1 knock-outs, p26 knock-outs and AtVdac1-p26 double kock-outs in response to growth in medium with salicylic acid

Project description:Functions of AtVDAC1 and its partner p26 in Arabidopsis thaliana. We previously showed that knock-out mutants impaired in AtVdac1 and p26 (AtVdac1 protein partner) are hypersensitive to salicylic acid: the root growth is more inhibited in response to 30 uM salicylic acid (SA) compared to the wild type. We want to know now which genes are up- or down-regulated in the mutants in control and SA conditions. We want to compare the RNAm contents in the wild type, vdac1 and p26 mutants and, vdac1-p26 double mutant. One-week old plantlets were transferred for 2 hours on a fresh medium containing either 0 or 30uM salicylic acid. Arabidopsis lines (WT, vdac1.1, p26.1, vdac1.1-p26.1) were grown in vertical position on ABIS medium (Lanquar et al., 2006). One week-old seedlings were transferred on a fresh ABIS medium containing either 0 or 30 uM salicylic acid. After 2 hours, the all seedlings were harvested. Three replicates were done; total RNAs from these 3 experiments were mixed together for the transcriptomic analysis.

2007-06-19 | E-MEXP-795 | biostudies-arrayexpress

Transcription profiling of wild type and atNRT2.7 genotype Arabidopsis leaves and roots grown in high or low nitrate conditions

Project description:Does the NRT2.7 participate to the HATS? We would like to understand the function of the AtNRT2.7 in nitrate transport under limiting and non limiting nitrate conditions. Plants were harvested after 32 days for plants under high nitrogen nutrition and 42 days for low nitrogen nutrition. Plants were grown hydroponic condition (short day, 170 uE).

2007-07-01 | E-MEXP-801 | biostudies-arrayexpress

Transcription profiling of Arabidopsis thioredoxin reductase knock-out mutant

Project description:Transcriptomic study of a thioredoxin reductase knock-out mutant. Biological question : Thioredoxins are small redox proteins implicated in crucial pathways of cell life. They are reduced by a conserved flavoprotein named NADPH-dependent thioredoxin reductase (NTR). In order to give an insight into the functions of the NTR/thioredoxin pathway in Arabidopsis, we have used a reverse genetic approch. Both NTR genes (NTRA and NTRB) have been inactivated in the double ntra ntrb mutant. T-DNA lines have been provided by the SALK library. Surprisingly, this mutant shows a limited phenotype suggested that some additional redox pathways are involved in compensating the inactivation of the NTR/thioredoxin pathway. In order to isolate compensatory genes that would be transcriptionally induced in the ntra ntrb mutant, we have performed this CATMA project. Seeds of the wild-type Col-0 ecotype and of the ntra ntrb homozygote double mutant were sowed in soil. Three replicates of lines were made (Col-0 1, 2 and 3 ntra ntrb 1, 2 and 3) : plants were put at different places of the greenhouse and grown at different times. Germination was synchronized by 4 days at 4C and plants were grown during 17 days, until they reached a 6 rosette leaves stage. Entire plants (30 plants per sample) were harvested, frozen in liquid nitrogen and stored at -80C until extraction.

2005-09-15 | E-MEXP-365 | biostudies-arrayexpress

Transcription profiling of the1, prc1, prc1_the1 and prc1_the2 gene knockout Arabidopsis dark-grown hypocotyls to identify genes involved in cell wall integrity signalling

Project description:Inhibition of cellulose synthesis by chemical inhibitors or in a mutant background leads to rapid inhibition of cell elongation. This inhibition appears to be an active process, which involves feedback signalling from the cell wall. We have isolated two loci THE1 and THE2, which are identified by mutations that partially suppress the dark-grown hypocotyl phenotype in a mutant background for cellulose synthase catalytic subunit CESA6_PROCUSTE1. THE1 encodes a receptor kinase and may play a role in this feedback signalling process. To identify genes that are regulated by THE1 and THE2, we compared the transcript profiles of 5 day-old dark-grown seedlings of the1-1_prc1-1 with prc1-1 ; the1-3_prc1-8 with prc1-8 ; prc1-8 or the1-3 with WS and the2-1_prc1-1 with prc1-1.

2007-03-31 | E-MEXP-638 | biostudies-arrayexpress

Transcription profiling of Arabidopsis cells treated with hydrogen peroxide for different lengths of time to investigate the involvement of small non-coding RNAs in responses to oxidative stress

Project description:Arabidopsis cells (5 days after subculturing) were cultured at 21°C, 8 h photoperiod under agitation. H2O2 2.5 µM was added to cells 5 days after subculturing and 2 hours after the beginning of the light period. Treated and control cells were collected 15 min, 1 h, 5 h and 12 h after treatment.

2006-11-29 | E-MEXP-395 | biostudies-arrayexpress

Transcription profiling of Arabidopsis Cul3a-1 mutant and control plants during germination in far red light

Project description:Parallel germination of Cul3a-1 mutant and control plants in far red light.

2005-01-01 | E-MEXP-175 | biostudies-arrayexpress

Transcription profiling of Arabidopsis nin7-1 and nin7-2 in a low nitrogen regime

Project description:Does the ko of NIN7 leads to a differential expression in comparison to the wildtype. Can we repeat the results from the first experiment; and is there a difference between the two alleles? Plants were harvested during the first 3 hours of light after 42 days growth on 0.2mM or 6mM nitrate in hydroponic condition (short day, 170 uE).

2006-12-19 | E-MEXP-516 | biostudies-arrayexpress

Transcription profiling of Arabidopsis in standards condition and in response to nickel treatment to assess the effect nicotianamine over-accumulation on the transcriptome of A. thaliana

Project description:Effect of nicotianamine over-accumulation on the transcriptome of A. thaliana in standard condition and in response to nickel treatment After germination, plants were grown hydroponically for 6 weeks in classical nutrient solution (Marques et al, New Phytol, 2004, vol 164, pp 289-95) and then treated for 48 hours with 50 uM NiSO4 or with no nickel added for control. Biological question : Nicotianamine is a known metal chelator (of Mn, Fe, Zn, Ni, Cu) suspected to be involved in metal delivery and/or circulation in planta. This project aim at understanding the effect of the modulation of the nicotianamine content on the transcriptome of Arabidopsis thaliana in control hydroponic condition and in response to nickel treatment both at the root and at the leaf level.

2006-06-01 | E-MEXP-373 | 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