Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Analysis of NPC48 overexpressing in Arabidopsis roots

ABSTRACT: We analyze the effect of the overexpression of the lncRNA NPC48 on the transcriptome. Root apices were harvested and total RNA extracted for RNA sequencing.

ORGANISM(S): Arabidopsis thaliana

PROVIDER: GSE151005 | GEO | 2020/05/22

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Similar Datasets

rnadapt- Non-coding RNAs in the adaptation of root growth to phosphate starvation [miRNA-Seq]

Project description:Identification of new elements (non-coding-RNA) controlling root growth in response to phosphate.-Plants (Columbia er 105, or Landsberg erecta) were grown one week on media with Phosphate (+P) and then transfered on media without (-P = P starvation) for 1h or 2h. Root apices were harvested and total RNA extracted for RNA sequencing.

2019-03-14 | GSE128256 | GEO

rnadapt-Non-coding RNAs in the adaptation of root growth to phosphate starvation

Project description:ngs2013_14_rnadapt-rnadapt-Identification of new elements (non-coding-RNA) controlling root growth in response to phosphate.-Plants (Columbia er 105, or Landsberg erecta) were grown one week on media with Phosphate (+P) and then transfered on media with (+P) or without (-P = P starvation) for 1h or 2h. Root apices were harvested and total RNA extracted for RNA sequencing.

2019-03-14 | GSE128250 | GEO

Influence of the downregulation of the ARES lncRNA (AT4G14548) on gene regulation in Arabidopsis thaliana

Project description:We analyze the effect of the downexpression of the ARES lncRNA (AT4G14548) on the transcriptome of Arabidopsis roots. 12 DAS roots were harvested and total RNA extracted for RNA sequencing.

2023-08-25 | GSE207358 | GEO

Influence of the downregulation of the MARS lncRNA (AT5G00580) of the response to Abscisic acid (ABA) in Arabidopsis

Project description:We analyze the effect of the downexpression of the lncRNA MARS (AT5G00580) on the transcriptome in response to ABA treatment. 12 DAS seedlings were harvested and total RNA extracted for RNA sequencing.

2022-02-24 | GSE192382 | GEO

Transcription profiling of Arabidopsis floral apices overexpressing miR156b or miR164b, and wild type controls

Project description:RNA was harvested from floral apices of long-day grown plants. Overexpression of miR156b and 164b versus control.

2007-06-27 | E-GEOD-2079 | biostudies-arrayexpress

Single-cell RNA-sequencing analysis of Arabidopsis roots

Project description:We report the use of high-throughput single-cell RNA sequencing (scRNA-seq) to analyze gene expression in wild-type and mutant Arabidopsis root cells. We demonstrate that using a commercially available platform for droplet-based scRNA-seq (10X Genomics Chromium) enables transcriptional profiling of individual protoplasts representing all of the major cell/tissue types of the root. Furthermore, rare cell types and subtypes have been identified. These single-cell transcriptomes were also used to generate a pseudotime series for the root hair and non-hair cell differentiation pathways. In addition, scRNA-seq was used to define and compare transcriptomes from root epidermis mutants, which enabled a detailed molecular analysis of the mutant phenotype. This study demonstrates the feasibility and usefulness of scRNA-seq in plants and provides a gene expression map at single-cell resolution for the Arabidopsis root.

2019-02-05 | GSE123013 | GEO

Project description:WOX5 maintains columella stem cells in the Arabidopsis root and prevents their differentiation. In order to understand the molecular mode of WOX5 action the genes differentially expressed by WOX5 inducible over-expression were determined by analysis of microarray hybridizations. Seedlings transformed with a dexamethasone inducible WOX5 construct were induced for one or four hours with dexamethasone or a mock solution. Other seedlings were treated one hour with cycloheximide ( a protein synthesis inhibitor to reduce secondary transcriptional effects after WOX5 activation) and either dexamethasone or a mock solution. Root tips were harvested, RNA extracted, and the RNA samples prepared for hybridization to Affymetrix microarrays. Potential target genes of WOX5 were further analyzed by transcriptional markers, qPCR and EMSA (electrophoretic mobility shift assay).

2016-10-16 | E-MTAB-2853 | biostudies-arrayexpress

AhNAS2 suppression in Arabidopsis halleri roots

Project description:The model Zn hyperaccumulators Arabidopsis halleri and Noccaea caerulescens share elevated nicotianamine synthase (NAS) expression relative to non-accumulators among a core of alterations in metal homeostasis gene expression. Suppression of AhNAS2 expression by RNAi resulted in strongly reduced root NA accumulation and a concomitant decrease in root-to-shoot-translocation of Zn but not of other micronutrients. Few secondary effects on the root transcriptome were detected by microarray analysis. Vegetatively propagated clones of A. halleri wildtype plants and a line with strong suppression of AhNAS2 were grown hydroponically for weeks in two different media (control Hoagland and 10 µM Zn2+ added). Roots were harvested and analyzed. Three plants were pooled for one sample. Three independent experiments were performed.

2011-12-31 | E-GEOD-31778 | biostudies-arrayexpress

Overexpression of miR156b and miR164b (floral apex)

Project description:RNA was harvested from floral apices of long-day grown plants. Overexpression of miR156b and 164b versus control. Keywords: parallel sample

2005-02-01 | GSE2079 | GEO

AhNAS2 suppression in Arabidopsis halleri roots

2011-12-31 | GSE31778 | 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