Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Whole genome bisulfite sequencing of ros1-1 mutant and C24 wild-type (WT)

ABSTRACT: Using whole genome bisulfite sequencing to provide single-base resolution of DNA methylation status in ros1-1 mutant and C24 WT

ORGANISM(S): Arabidopsis thaliana

PROVIDER: GSE76382 | GEO | 2016/11/01

SECONDARY ACCESSION(S): PRJNA307154

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

Whole genome bisulfite sequencing of rdm16ros1, ros1, nrpd1ros1 mutants and C24 wild-type

Project description:Using whole genome bisulfite sequencing to provide single-base resulution of DNA methylation status in rdm16ros1, ros1, nrpd1ros1 mutants and examine the effect of RDM16 on DNA methylation 4 samples examined: C24 wild type with RD29A-LUC transgene, rdm16ros1 double mutant, ros1 mutant, nrpd1ros1 mutant (all in C24 background with RD29A-LUC transgene)

2013-09-27 | E-GEOD-44417 | biostudies-arrayexpress

Whole genome bisulfite sequencing of rdm16ros1, ros1, nrpd1ros1 mutants and C24 wild-type

Project description:Using whole genome bisulfite sequencing to provide single-base resolution of DNA methylation status in rdm16ros1, ros1, nrpd1ros1 mutants and examine the effect of RDM16 on DNA methylation

2013-09-27 | GSE44417 | GEO

Whole genome bisulfite sequencing of idm1, rdd, ros1 mutants and Col-0 WT

Project description:Using whole genome bisulfite sequencing to provide single-base resolution of DNA methylation status in ros1, idm1, and rdd mutants and identify hypermethylated regions comparing to wild type Arabidopsis plants.

2012-06-17 | GSE33071 | GEO

Whole genome bisulfite sequencing of idm1, rdd, ros1 mutants and Col-0 WT

Project description:Using whole genome bisulfite sequencing to provide single-base resulution of DNA methylation status in ros1, idm1, and rdd mutants and identify hypermethylated regions comparing to wild type Arabidopsis plants. Examination of 3 different mutants' methylome. 8 samples (3 mutants, 1 WT, each has two biological replicates)

2012-06-17 | E-GEOD-33071 | biostudies-arrayexpress

MethlyC-Seq of Col-0 (wild type, WT), nrpd1-3, nrpe1-11, ros1-4 single mutants and ros1-4nrpd1-3 double mutant

Project description:Using MethylC-Seq to provide single-base resolution of DNA methylation status in WT, nrpd1-3, nrpe1-11, ros1-4 single mutants and ros1-4nrpd1-3 double mutant

2016-11-01 | GSE72280 | GEO

Gene expression data from Arabidopsis C24 wild-type and ros1-1 seedlings.

Project description:We carried out a microarray experiment by using Affymetrix Arabidopsis ATH1 Genechips in order to identify genes that show reduced expression in ros1-1 plants. 2 samples examined: C24 wild-type and ros1-1 mutant (in C24 background).

2013-11-23 | E-GEOD-52669 | biostudies-arrayexpress

MethlyC-Seq of ros1-13 mutant

Project description:Using MethylC-Seq to provide single-base resolution of DNA methylation status in ros1-13 mutant

2015-02-05 | GSE58790 | GEO

MethlyC-Seq of ros1-13 mutant

Project description:Using MethylC-Seq to provide single-base resolution of DNA methylation status in ros1-13 mutant Whole genome methylation maps of ros1-13 (with 35S-SUC2 transgene) was generated using BS-seq

2015-02-05 | E-GEOD-58790 | biostudies-arrayexpress

Whole genome bisulfite sequencing of nrpd1 mutant in C24 background [methyl-seq]

Project description:Arabidopsis ROS1 is the first genetically characterized DNA demethylase in eukaryotes. Dysfunction of ROS1 leads to increase in DNA methylation level at thousands of genomic loci. However, the features of ROS1 targets are not well understood. In this study, we identified and characterized ROS1 target loci in Arabidopsis Col-0 and C24 ecotypes. Most ROS1 targets are transposable elements (TEs) and intergenic regions. Compared to other TEs, ROS1-targeted TEs are closer to protein coding genes, suggesting a role for ROS1 in preventing the spreading of DNA methylation from highly methylated TEs to nearby genes. Interestingly, we found that unlike general TEs, ROS1 targets are associated with an enrichment of H3K18ac and H3K27me3, and depletion of H3K27me and H3K9me2. We investigated the antagonism between ROS1 and RNA-directed DNA methylation (RdDM) by identifying and characterizing thousands of genomic regions regulated by both ROS1 and RdDM. Unexpectedly, we uncovered thousands of previously unidentified RdDM targets by analyzing the DNA methylome of ros1/nrpd1 double mutant plants. In addition, we show that ROS1 also antagonizes RdDM-independent DNA methylation at more than a thousand genomic loci. Our results provide significant insights into the genome-wide effects of both ROS1-mediated active DNA demethylation and RNA-directed DNA methylation as well as their interaction in plants.

2016-11-01 | GSE83801 | GEO

small RNA profiling of WT, ros1-4, nrpd1 single mutants and ros1-4/nrpd1doubble mutant [small RNA-seq]

2016-11-01 | GSE83800 | GEO