Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Genome wide analysis of the chromatin state and gene expression in Wild-type, tor-es mutant, and fie mutants

ABSTRACT: Genome wide analysis of the chromatin state and gene expression in Wild-type, tor-es mutant, and fie mutants

PROVIDER: PRJNA679555 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Similar Datasets

Genome wide analysis of the chromatin state and gene expression in Wild-type, tor-es mutant, and fie mutants

Project description:Using Western blot, we found the level of H3K27me3, but not H3K4me3, H3K9me2 and H3K36me3, was specifically reduced in the tor-es mutant. To gain a genome-wide view of the effects of TOR activity on H3K27me3 distribution, we performed quantitative chromatin immunoprecipitation with an exogenous reference genome (ChIP-Rx) followed by deep-sequencing. We find a global reduction of H3K27me3 occupancy in tor-es, whereas the H3K9me2 level was largely unaffected. These results suggest that TOR may be a specific and direct regulator of global deposition of H3K27me3. To investigate the function of TOR phosphorylation of FIE, we complemented the heterozygous fie/+ plants with GFP-FIE or the phosphorylation site mutant (SSTS/AAAA) under the control of the FIE promoter. To provide a parallel comparison with SSTS/AAAA/fie, we generated estradiol-inducible fie-amiR-es transgenic lines, that eliminated FIE protein. Quantitative ChIP-seq analyses revealed greatly reduced H3K27me3 levels across the genome in SSTS/AAAA and fie-amiR-es mutants. And transcriptome profiling by RNA-Seq was conducted to globally identify thousands of genes coordinately dysregulated in the shoots of SSTS/AAAA and fie-amiR-es plants. Furthermore, gene Ontology analysis of 986 TOR-FIE-PRC2 target genes revealed significant enrichment for transcription factors/regulators controlling a broad spectrum of developmental programs.

2022-06-20 | GSE161807 | GEO

Transcription profiling by high throughput sequencing of Arabidopsis estradiol-inducible tor-es mutant

Project description:To validate that the transcriptional program rapidly activated by PP242, WYE354, KU63794 and Torin2 was specifically associated with the complete inhibition of TOR kinase, we performed genome-wide transcript profiling using the estradiol-inducible tor-es mutant after reaching complete TOR protein silencing in Arabidopsis seedlings grown in the full-nutrient medium. The estradiol inducible tor-es mutant was treated without/with estradiol for 72 hours to complete inhibition of TOR kinase. And RNA-seq was performed for comparison the transcriptomes changes (http://gbnci.abcc.ncifcrf.gov/geo/gse_view.php?ID=58096).

2015-06-08 | E-MTAB-4132 | biostudies-arrayexpress

Analysis of arabidopsis mutants tor/lst8/yak1/maktor

Project description:ngs2018_05_tor-analysis of arabidopsis mutants tor/lst8/yak1/maktor-Analysis of Arabidopsis insertion and suppressor mutants linked to the TOR signaling pathway.-Comparison of in vitro grown plantlets for lst8, yak1 mutants and double mutants corresponding to suppressor lines. Comparison of in vitro grown plantlets for mutants affected in LST8 interacting proteins (MAKTOR) compared to wild type.

2019-05-23 | GSE120003 | GEO

tor-Transcriptome analysis of TOR (Target of Rapamycin) mutant.

Project description:ra03-07_tor - tor - Study of 2 TOR mutants (7817 Strong, 7846 weak) - Mutant vs wild type on different nitrogen conditions (10mM=control and 100uM) Keywords: treated vs untreated comparison,wt vs mutant comparison

2007-06-20 | GSE7987 | GEO

rnai tor time course - The signalization way TOR/PTEN in Arabidopsis

Project description:gnp_blan06_torpten - rnai tor time course - The impact of the TOR pathway on growth and stress responses. Modification of translational and transcriptional profiles in Tor-inducible RNAi mutants and identification of TOR targets.

2011-01-07 | GSE25701 | GEO

rnai tor time course - The signalization way TOR/PTEN in Arabidopsis

2011-01-07 | E-GEOD-25701 | biostudies-arrayexpress

dark hypocotyls tor rnai-Dark hypocotyls TOR RNAi

Project description:fapesp-bra-inra-10-01_bioen_hypocotyl - dark hypocotyls tor rnai - Transcriptional comparison between 2 TOR RNAi mutants versus GUS control. - Sowing after 24h imbibition at 4°C in the dark, on MS1/5, no sucrose, 10 mM ethanol, 8 g/l agar, vertical growth with 3h light, 6 days growth in the dark (20°C), hypocotyls were harvested under green light ; cotyledons and root were removed.

2012-10-10 | GSE41404 | GEO

dark hypocotyls tor rnai-Dark hypocotyls TOR RNAi

Project description:fapesp-bra-inra-10-01_bioen_hypocotyl - dark hypocotyls tor rnai - Transcriptional comparison between 2 TOR RNAi mutants versus GUS control. - Sowing after 24h imbibition at 4M-BM-0C in the dark, on MS1/5, no sucrose, 10 mM ethanol, 8 g/l agar, vertical growth with 3h light, 6 days growth in the dark (20M-BM-0C), hypocotyls were harvested under green light ; cotyledons and root were removed. 4 dye-swap - normal vs rnai mutant comparaison

2012-10-10 | E-GEOD-41404 | biostudies-arrayexpress

Analysis of arabidopsis mutants tor/lst8/yak1/maktor

Project description:Analysis of arabidopsis mutants tor/lst8/yak1/maktor

| PRJNA491272 | ENA

Expression profiles of ES cells, epiblast stem cells, and epiblast stem cells reverted to an ES-like state

Project description:This analysis compares the expression profiles of CGR8 ES cells, E3 epiblast stem cells, and E3R cells (E3 EpiSCs reverted to an ES-like state).

2010-02-21 | GSE17132 | GEO

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