Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

ChIP-seq using BrJMJ18-OX Par plants under NC and HS conditions

ABSTRACT: ChIP-seq using BrJMJ18-OX Par plants under NC and HS conditions

PROVIDER: PRJNA929226 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR23266427_1.fastq.gz	Fastqsanger.gz
	SRR23266427_2.fastq.gz	Fastqsanger.gz
	SRR23266428_1.fastq.gz	Fastqsanger.gz
	SRR23266428_2.fastq.gz	Fastqsanger.gz
	SRR23266429_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 24

Similar Datasets

ChIP-seq using BrJMJ18-OX Par plants under NC and HS conditions

Project description:Using genome-wide pattern analysis and quantitative-trait-locus (QTL) mapping, we identified that a natural allele of BrJMJ18, BrJMJ18Par, encoding a novel H3K36me3/2 Jumonji demethylase, confers thermotolerance by delayed flowering and stimulated vegetative growth on B. rapa.To assess the downstream genes of BrJMJ18, we conducted a chromatin immunoprecipitation (ChIP) seq experiment using a polyclonal antibody recognizing BrJMJ18 in Par plants under normal conditon (LD, 21℃) and high temperature condiation (LD, 28℃), respectively.

2024-01-31 | GSE223969 | GEO

Expression profiling of OsEREBP1-ox plants

Project description:Over expression of a transcription factor OsEREBP1 results in attenuation of disease symptoms upon infection with bacterial pathogen Xanthomonas oryzae pv. oryzae and tolerance to drought stress in transgenic rice plants. Microarray analysis was performed to identify genes regulated by the rice transcription factor OsERBP1. Four independent replicates of the experimental OsEREBP1-ox transgenic plants and the control non-transgenic Kitaake plants were grown under normal conditions.

2013-11-15 | E-GEOD-46173 | biostudies-arrayexpress

Escherichia coli HS strain:HS

Project description:Escherichia coli HS strain:HS Genome sequencing

| PRJNA1238343 | ENA

Maribacter sp. HS strain:HS

Project description:Maribacter sp. HS strain:HS Genome sequencing

| PRJNA1057603 | ENA

Deefgea sp. HS strain:HS

Project description:Deefgea sp. HS strain:HS Genome sequencing and assembly

| PRJNA984196 | ENA

The genes upregulated in WRKY45-ox rice relative to Nipponbare

Project description:WRKY45-overexpressing (WRKY45-ox) rice plants are extremely resistant to rice blast and bacterial leaf-blight diseases. To search for the genes that are potentially responsible for the strong resistance, we performed genome-wide gene expression analysis in WRKY45-ox rice. A microarray analysis using Agilent rice oligo microarray for approximately 42,000 rice genes identified 1,664 genes that are upregulated in WRKY45-ox rice compared with non-transformant rice cv. Nipponbare (NB). Analysis of the genes with altered expression in WRKY45-ox rice by a Gene ontology program (Agri GO; http://bioinfo.cau.edu.cn/agriGO/) revealed that several genes in the biosynthetic pathway for diterpenoid phytoalexins, for which anti-blast fungus activities have been reported, were upregulated in WRKY45-ox rice.

2013-12-31 | GSE48202 | GEO

Differentially expressed genes between WT and HRE1α OX, WT and HRE1β OX, and WT and AtRH17 OX

Project description:Differentially expressed genes between WT and HRE1α OX, WT and HRE1β OX, and WT and AtRH17 OX

| PRJNA638540 | ENA

Project description:NC Metagenome

| PRJNA894814 | ENA

RNA-Sequencing Analysis of ox-LDL-treated Peritoneal Macrophages Transcriptomes

Project description:Since previous stduies demostrated that oxidized phospholipids function as caspase-11 agonists to induce noncanonical inflammasome activation in immune cells and the levels of oxidized phospholipids derived from ox-LDL are largely elevated in atherosclerotic lesions. Purpose:RNA-Sequencing analysis of ox-LDL-treated peritoneal macrophages transcriptomes.Methods and results:The principal component analysis gene expression profiles of the control and ox-LDL-treated groups were clearly distinct. Among the DEGs that met the cutoff criteria of a -log10(false discovery rate (FDR)) > 2 and |log2(fold change (FC)| > 2. A total of 1,388 downregulated and 855 upregulated genes were identified. GSEA showed that the dominant upregulated pathways in ox-LDL-treated macrophages were associated with the IL-1-mediated signaling pathway, response to cytokine stimulus, and granulocyte migrationwe discovered that caspase-11-mediated inflammation signaling was significantly activated in ox-LDL-treated peritoneal macrophages.Conclusions：we verified caspase11associated inflammatory signaling was significantly activated in ox-LDL-treated macrophages.

2021-05-19 | GSE171413 | GEO

Comparison between Saccharomyces cerevisiae HS 10, HS 34 and HS 12, HS 37

Project description:Gene expression of different flocculent (HS 10 and HS 34) and powdery (HS 12 and HS 37) yeast strains compared to each other during exponential and stationary growth phase was analysed. The isolation of RNA was done by disruption of the cells under liquid nitrogen using mortar and pistil and then the Qiagen RNeasy Midi Kit with some modifications within the manufacturers´ protocol and the Qiagen RNase-Free DNase Set were applied. 6 µg of the total RNA per sample was used for each microarray experiments. The indirect labelling by the tyramide-signal-amplification method (MicromaxTM TSATM labelling and detection Kit from Perkin Elmer life sciences) was used to increase the Cy3 and Cy5 signals of microarray detection. Each cDNA containing Biotin- and Fluorescein-nucleotides respectively was purified with a QIAquick PCR purification kit and suspended in 11 µl of the formamide containing hybridization buffer. The slides were hybridized at 42°C over night under a cover slip. The microarrays were scanned by the Axon 4000B scanner; image intensity data were extracted and analysed with GenePix® Pro 6.0 software. Data from different scans of Dye-swap experiment were extracted by GenePix Pro 6.0 software, normalized and united. An outliertest has been applied in order to find outliers amongst the gene replicats. Subsequently, a t-test (1% and 5% probability of error) has been used in order to find regulated genes. Keywords: sorted yeast cells Microarray experiments were realised with dye swap.

2008-12-11 | E-GEOD-12369 | 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