Browse
Submit Data
Databases
API
Help

Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

OsJMJ705 preferentially activates stress-responsive genes

ABSTRACT: Histone methylation is important epigenomic information for gene regulation and genome activity To evaluate genome-wide effect of OsJMJ705 on gene expression, we used the Affymetrix microarray technologies to analyze the transcriptomes of the wild type, over-expression plants and the T-DNA mutant. Gene ontology (GO) analysis revealed that up-regulated genes were significantly enriched for the categories of stress-responsive genes. To evaluate genome-wide effect of OsJMJ705 on gene expression, we used the Affymetrix microarray technologies to analyze the transcriptomes of the wild type, over-expression plants and the T-DNA mutant 14 days after germination under normal growth conditions. Two biological repeats were performed. Gene expression changes between the samples were analyzed by AffylmGUI package from the R software.

ORGANISM(S): Oryza sativa Japonica Group

SUBMITTER: zhong xiaochao

PROVIDER: E-GEOD-48069 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Similar Datasets

OsJMJ705 preferentially activates stress-responsive genes

Project description:Histone methylation is important epigenomic information for gene regulation and genome activity To evaluate genome-wide effect of OsJMJ705 on gene expression, we used the Affymetrix microarray technologies to analyze the transcriptomes of the wild type, over-expression plants and the T-DNA mutant. Gene ontology (GO) analysis revealed that up-regulated genes were significantly enriched for the categories of stress-responsive genes.

2013-12-10 | GSE48069 | GEO

Expression data from Arabidopsis before and after bacterial RNA infiltration

Project description:To analyze transcription in plants induced by total bacterial RNAs, we examined the transcriptomes of RNAs-treated plants at 0 and 6 h compared to those of control plants at the same time points.

2016-10-01 | GSE73301 | GEO

Gene regulation in autophagy and apoptosis juncture

Project description:Autophagy to apoptosis switching event is an unexplored area. We were interested to explore the gene expression profile at this juncture. Our Microarray data emphasized that among all eNOS and p62 genes were markedly induced. In fuctional level eNOS expression activates mTORC1 followed by inhibition of autophagy. This ultimately allowed accumulation of p62 . Intraccellular accumulation of p62 sequestered unfolded toxic protein aggregates in mitochondria and ER resulting in to impaired redox regulation. Intraccelular ROS generation further sensitized cells for apoptosis and tilted autophagic response to apoptosis. Cells were treated with Tunicamycin as an inducer of both autophagy and apoptosis. At early stage of Tunicamycin treatment 24h , prostate cancer cell PC3 showed activation of autophagic process where apoptosis was not evident. Sustained ER stress with Tunicamycin induced late apoptoisis at 72h of treatment. Hence we isolated total RNA from Untreated cells, cells with Tunicamycin treatment after 24h and 72h. Further the RNA were used to perform whole genome microarray to analyze the gene expression profile at autophagy and apoptosis juncture. The selected genes were also validated by qPCR and western bot. Morover RNAi study were implemented to evaluate the signaling crosstalk at the juncture of autophagy and apoptosis.

2014-05-22 | E-GEOD-38643 | biostudies-arrayexpress

Altered gene expressions of leukocyte transendothelial migration and cell communication pathways in periodontitis-affected gingival tissues

Project description:Gene expressions relate to the pathogenesis of periodontitis and have a crucial role in local tissue destruction and susceptibility to the disease. The aims of the present study were to explore comprehensive gene expressions/transcriptomes in periodontitis-affected gingival tissues, and to identify specific biological processes. The purpose of the present study was 1) to compare comprehensive gene expression/transcriptomes of periodontitis-affected gingival tissues with those of healthy tissues by using microarray and data mining technologies, and 2) to analyze significantly differentially expressed genes which belong to pathological pathways in periodontitis by qRT-PCR.

2010-08-13 | GSE23586 | GEO

Transcription profiling under heat stress of transgenic Arabidopsis lines in which expression of BPMs were suppressed by an amiRNA

Project description:BPMs are a family of E3 ubiquitin ligases. We identified BPM proteins as interactors of the Arabidopsis stress responsive transcription factor DREB2A. We found an increase in the accumulation level of the DREB2A protein under heat stress in transgenic Arabidopsis plants in which expression of six BPMs were suppressed by an amiRNA. In order to evaluate the impacts of the amiRNA on the gene expression under heat stress, transcriptomes were compared between these transgenic plants and vector control plants.

2018-11-01 | E-MTAB-5845 | biostudies-arrayexpress

Expression data from Oryza sativa and Arabidopsis thaliana

Project description:The goal of this work is to identify the gene regulatory hubs that control nitrogen-use in Oryza sativa, one of the most important crop plants, by using a combination of genomics, bioinformatics and systems biology approaches. Here, we evaluate the role of bZIP1, a transcription factor involved in light and nitrogen sensing, by exposing wild-type (WT) and bZIP1 T-DNA null mutant plants to a combinatorial space of N and L treatment conditions. We use ANOVA analysis combined with clustering and Boolean modeling, to evaluate the role of bZIP1 in mediating L and N signaling genome-wide. We also study the interspecies conservation, comparing rice with Arabidopsis thaliana nitrogen transcriptomes, to help identify conserved nitrogen regulation.

2015-06-10 | E-GEOD-38102 | biostudies-arrayexpress

RNA-seq of Arabidopsis response to Tetranychus urticae infestation at altered climate conditions

Project description:The Arabidopsis/Tetranychus urticae pair is a model to analyze the response of the plant to the infestation with phytophagous mites. To deep into the effects of environmental conditions on the response of the plant, we compare the transcriptomes of plants grown at standard conditions with plants grown at low humidity and/or mild warm temperature. Comparisons were performed without a second stressor and after 30 min of mite infestation.

2024-12-14 | E-MTAB-13675 | biostudies-arrayexpress

Time-course transcriptome analysis in roots of N-limited Medicago truncatula plants grown in split-root inoculated with Sinorhizobium medicae

Project description:The experiment aims to analyze the effect of inoculation with Sinorhizobium medicae MD4 of on the transcriptome of the Medicago truncatula roots of N-limited plants. We divided the roots systems into two parts; one of them was supplied with nutrient solution with mineral N (0.5 mM for N-limited plants) whereas the non-N treated part was kept in nutrient solution without mineral N. All roots were inoculated 48h after initiation of the N treatments. We collected the roots the non-N treated side of the split roots system and we isolated total RNA for RNAseq analysis. Root transcriptomes were analyze before inoculation, at 1 and 2 days post-inoculation.

2021-04-30 | E-MTAB-9932 | biostudies-arrayexpress

Effect of mutating MpGLR on gene expression after wounding II

Project description:To establish the role of the Glutamate Receptor-like gene in Marchantia polymorpha, MpGLR , in wound-induced gene expression changes, we compared the transcriptomes of plants that are wild type for MpGLR to the transcriptomes of Mpglr-7, a deletion mutant in MpGLR, analyzing samples from intact plants and from wounded plants, both from damaged tissues and from systemic undamaged tissues of wounded plants.

2024-04-22 | GSE250478 | GEO

Effect of mutating MpGLR on gene expression after wounding 1

Project description:To establish the role of the Glutamate Receptor-like gene in Marchantia polymorpha, MpGLR , in wound-induced gene expression changes, we compared the transcriptomes of plants that are wild type for MpGLR to the transcriptomes of Mpglr-9, a deletion mutant in MpGLR, analyzing samples from intact plants and from wounded plants, both from damaged tissues and from systemic undamaged tissues of wounded plants.

2024-04-22 | GSE250353 | 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