Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Nep1 Treatment

ABSTRACT: In order to study the Nep1 responsive genes in Arabidopsis, experiments were performed with the Affymetrix GeneChip Arabidopsis ATH1 Genome Array (Santa Clara, CA; Cat # 900385). Keywords: Arabidopsis, Nep1, Affymetrix GenChip

ORGANISM(S): Arabidopsis thaliana

PROVIDER: GSE4638 | GEO | 2006/04/11

SECONDARY ACCESSION(S): PRJNA95309

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

Transcription profiling of Arabidopsis seedlings exposed to ANep1 Treatment

Project description:In order to study the Nep1 responsive genes in Arabidopsis, experiments were performed with the Affymetrix GeneChip Arabidopsis ATH1 Genome Array (Santa Clara, CA; Cat # 900385). Experiment Overall Design: Seven-day old Arabidopsis seedlings were exposed to Nep1 (10 ug/mL) treatment or using sterilized, deionized H2O as a control for 30 min. Two independent biological replications were conducted using two independent samples and two microarrays.

2008-06-13 | E-GEOD-4638 | biostudies-arrayexpress

Modulation of microglia-mediated amyloid-beta clearance with nanoformulated polyphenol through the SIRT1-LDLR pathway

Project description:Light-controlled in situ synthesis of DNA microarrays (Affymetrix GeneChip® Mouse Genome 430 2.0) were performed to determine the altered gene expression. Affymetrix algorithm and multiple analysis comparison software were used for assessing gene expression differences, and mRNAs that increased or decreased in the brains of NP(α-M)-treated mice relative to that in the brains of Blank-NP-treated mice were identified. For the assay, total RNA was extracted using Takara RNAiso Plus Kit (Cat#9109, Takara, DaLian, LiaoNing, CN) following the manufacturer’s instructions and checked for a RIN number to inspect RNA integrity by an Agilent Bioanalyzer 2100 (Agilent technologies, Santa Clara, CA, US). Qualified total RNA was further purified by RNeasy mini kit (Cat#74106, QIAGEN, GmBH, Germany) and RNase-Free DNase Set (Cat#79254, QIAGEN, GmBH, Germany). Array hybridization and wash was performed using GeneChip® Hybridization, Wash and Stain Kit (Cat#900720, Affymetrix, Santa Clara, CA, US) in Hybridization Oven 645 (Cat#00-0331-220V, Affymetrix, Santa Clara, CA, US) and Fluidics Station 450 (Cat#00-0079, Affymetrix, Santa Clara, CA, US) followed the manufacturer’s instructions. Slides were scanned by GeneChip® Scanner 3000 (Cat#00-00212, Affymetrix, Santa Clara, CA, US) and Command Console Software 4.0 (Affymetrix, Santa Clara, CA, US) with default settings. Raw data were normalized by MAS 5.0 algorithm, Gene Spring Software12.6.1 (Agilent technologies, Santa Clara, CA, US).

2018-09-14 | GSE119904 | GEO

Identification of putative targets of AP3/PI

Project description:To identify genes regulated by AP3/PI, we carried out microarray experiments using an Arabidopsis whole genome GeneChip array (ATH1 GeneChip, Affymetrix, Santa Clara, CA) in conjunction with an inducible AP3-GR system. For these experiments, we used 35S::AP3-GR transgenic plants in a 35S::PI, ap3-3 null mutant background for various dex or mock treatments. RNA was extracted from inflorescences at 0 and 4 hours after dex or a mock treatment and used as probes for our microarray experiments. Three biological replicates of each were hybridized to Affymetrix ATH1 arrays. We used the Affymetrix Microarray Suite software (MAS) to identify genes whose expression profiles changed only after dex-treatment and are likely targets of AP3/PI. Keywords: time course

2007-11-28 | GSE9702 | GEO

Transcription profiling of Arabidopsis cell cultures after Actinomycin D (transcriptional inhibitor) treatment to investigate global mRNA decay

Project description:Microarray analysis was carried out on samples removed from each of the Arabidopsis cell cultures prior to Actinomycin D (transcriptional inhibitor) treatment (0 h) and 1, 3, 6, 12 and 24 hours after Actinomycin D treatment using the Affymetrix GeneChip Arabidopsis ATH1 Genome Arrays (Affymterix, Santa Clara, CA).

2007-10-23 | E-ATMX-21 | biostudies-arrayexpress

Microarray analysis of human squamous cell lung cancer-H226 cells transfected with DDX56 siRNA and control siRNA

Project description:H226 cells transfected with DDX56 siRNA and control siRNA were incubated for 48 hours and total RNA isolated and used for the microarray analysis using Affymetrix Human U133 Plus 2.0 Arrays. Slides were scanned by GeneChip® Scanner 3000 (Cat#00-00212, Affymetrix, Santa Clara, CA, US) and Command Console Software 4.0 (Affymetrix, Santa Clara, CA, US) with default settings.

2019-07-01 | E-MTAB-6675 | biostudies-arrayexpress

miRNA expression in breast cancer cell lines

Project description:We analyzed the miRNA expression in 6 breast cancer cell lines from young (HCC1500, HCC1937) and old (MCF-7, MDA-MB-231, HCC1806 and MDA-MB-468) patients with breast cancer using the GeneChip® miRNA 2.0 Array (Affymetrix, Santa Clara, CA, USA).

2020-04-16 | GSE121396 | GEO

Expression data from rice roots treated with N starvation for 1 h

Project description:We used GeneChip Rice Genome Array (Affymetrix, Santa Clara, CA, USA) to identify genes that were rapidly induced by N starvation (1 h) in rice roots. Transcriptomic analysis of rice roots revealed that the expression of 288 genes was differentially regulated (144 up, 144 down) by N starvation (1 h).

2018-06-30 | GSE109649 | GEO

Expression data from rice roots treated with Glu

Project description:We used GeneChip Rice Genome Array (Affymetrix, Santa Clara, CA, USA) to identify genes that were rapidly induced by glutamate in rice roots. Transcriptomic analysis of rice roots revealed that the expression of at least 122 genes involved in metabolism, transport, signal transduction, defense, and stress responses was rapidly induced by glutamate within 30 minutes.

2016-12-31 | GSE82277 | GEO

Expression data from rice roots treated with Gln

Project description:We used GeneChip Rice Genome Array (Affymetrix, Santa Clara, CA, USA) to identify genes that were rapidly induced by glutamine in rice roots. Transcriptomic analysis of rice roots revealed that the expression of at least 35 genes involved in metabolism, transport, signal transduction, and stress responses was rapidly induced by glutamine within 30 minutes.

2015-06-30 | GSE56770 | GEO

Expression data from rice roots treated with NH4NO3

Project description:We used GeneChip Rice Genome Array (Affymetrix, Santa Clara, CA, USA) to identify genes that were rapidly induced by NH4NO3 in rice roots. Transcriptomic analysis of rice roots revealed that the expression of at least 158 genes involved in metabolism, transport, signal transduction, and stress responses was rapidly induced by NH4NO3 within 30 minutes.

2017-12-31 | GSE98017 | 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