Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

E-GEOD-84606

ABSTRACT: Transcription profiling by high throughput sequencing of Arabidopsis hos1-3 seedlings

PROVIDER: E-GEOD-84606 | ExpressionAtlas | 2017-02-20

REPOSITORIES: ExpressionAtlas

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	E-GEOD-84606-analysis-methods.tsv	Tabular
	E-GEOD-84606-analytics.tsv	Tabular
	E-GEOD-84606-atlasExperimentSummary.Rdata	Rdata
	E-GEOD-84606-configuration.xml	Xml
	E-GEOD-84606-g2_g1-mvaPlot.png	Other

Items per page:

1 - 5 of 22

Similar Datasets

Transcriptome-wide RNA 5-methylcytosine methylation in shoots of Arabidopsis thaliana

Project description:Here we use bisulfite conversion of rRNA depleted RNA combined with high-throughput Illumina sequencing (RBS-seq) to identify single-nucleotide resolution of m5C sites transcriptome-wide in Arabidopsis thaliana seedlings. m5C sites were also analyzed in Arabidopsis trm4b-1 and trdmt1 T-DNA KO mutants for the RNA methyltransferases TRM4B and TRDMT1.

2017-04-07 | GSE80051 | GEO

Effect of the gi-2 mutation on Arabidopsis thaliana gene expression

Project description:This study aimed to characterize the effect of GIGANTEA loss of function on gene expression in Arabidopsis thaliana seedlings genome-wide. To this end, transcriptomic analyses using high-throughput sequencing were carried out in Col-0 wildtype and gi-2 loss-of-function mutants.

2024-07-25 | GSE237670 | GEO

Profiling of mRNA N6-Adenosine Methylation (m6A) in Arabidopsis

Project description:m6A profiling in two accessions of Arabidopsis thaliana (Can-0 and Hen-16) using the m6A-targeted antibody coupled with high-throughput sequencing m6A-seq in two accessions of Arabidopsis, two replicates for each sample

2014-11-06 | E-GEOD-59154 | biostudies-arrayexpress

High-throughput sequencing of small RNAs from Arabidopsis thaliana

Project description:High-throughput sequencing of Arabidopsis thaliana endogenous small RNAs by 454 pyrosequencing. Keywords: high-throughput sequencing

2006-11-02 | GSE5228 | GEO

RUNX1 transcription factor genome-wide occupancy in EML cells

Project description:We report the application of sequencing technology for high-throughput profiling of RUNX1 transcription factor occupancy in mouse EML cells. RUNX1 antibody was use for chromatin immunoprecipitation followed by high-throughput sequencing to reveal RUNX1 genome occupancy in hematopoietic stem/progenitor cells. Examination of RUNX1 transcription factor occupancy in EML cells.

2014-10-24 | E-GEOD-62596 | biostudies-arrayexpress

To explore the relationship between new gene expression / mutation and survival of patients in colorectal cancer

Project description:Interventions: Case vs control:No Primary outcome(s): High-throughput sequencing Study Design: Case-Control study

| 2676067 | ecrin-mdr-crc

Next-generation sequencing facilitates quantitative analysis of microRNAs under TOR inhibitors treatment in potato

Project description:MiRNA plays an important role in post-transcriptional gene regulation in plants. Whether TOR is involved in post-transcriptional gene regulation remains unclear in potato and other plants. In this study, we conducted the high-throughput sequencing of genome-wide miRNAs in the potato seedlings for profiling their expression patterns and identifying TOR related miRNAs in potato.

2020-08-08 | GSE155877 | GEO

Profiling of mRNA N6-Adenosine Methylation (m6A) in Arabidopsis

Project description:m6A profiling in two accessions of Arabidopsis thaliana (Can-0 and Hen-16) using the m6A-targeted antibody coupled with high-throughput sequencing

2014-11-06 | GSE59154 | GEO

Genome-wide mapping of demethylase, REF6 binding targets and H3K27me3 marked regions in various Arabidopsis genetic backgrounds [ChIP-seq]

Project description:We report genome-wide binding targets of REF6, a H3K27me3 demethylase and also high-throughput profiling of histone modifications of H3K27me3 in Arabidopsis flowers. Using chromatin-immunoprecipitation followed by high-throughput sequencing, we mapped thousands of binding targets of REF6 in flowers and in addition, we used a second fixative, DSG to capture more indirect targets of REF6. In order to investigate the function of indirect binding of REF6 represented H3K27me3 demethylase, the binding targets of DNA binding domain deleted REF6 were identified in the triple mutant background in which REF6 and its two homologs were mutated. Meanwhile, the H3K27me3 marked regions in both wild type and triple mutant flowers were defined. By analyzing the differentially enriched H3K27me3 region and REF6 binding profile, we found that REF6 functions to determine the boundary of H3K27me3 regions. Comparison of binding profiles of REF6 in flowers and in seedlings (ref) revealed a tissue-specific binding manner. More importantly, we found that the indirect binding of REF6 is mediated by trans factors and this indirect binding is crucial for REF6 function, especially in reproductive organs in Arabidopsis. Our results provide novel molecular insights into REF6 functions.

2018-07-09 | GSE106942 | GEO

Single-Cell Transcriptomics Sheds Light on the Identity and Metabolism of Developing Arabidopsis Leaf Cells

Project description:Being the main photosynthetic instrument of vascular plants, leaves are crucial and complex plant organs. To establish the single-cell transcriptomic landscape of these different leaf tissues, we performed high-throughput transcriptome sequencing of individual cells isolated from young leaves of Arabidopsis seedlings grown in two different environmental conditions. The detection of ~19,000 different transcripts in over 1,800 high-quality leaf cells revealed 14 cell populations composing the young, differentiating leaf.

2021-10-15 | E-MTAB-11006 | 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