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 idm1, rdd, ros1 mutants and Col-0 WT

ABSTRACT: 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.

ORGANISM(S): Arabidopsis thaliana

PROVIDER: GSE33071 | GEO | 2012/06/17

SECONDARY ACCESSION(S): PRJNA149493

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Similar Datasets

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

BS-seq of ros1-3, ros1-4 with wildtype col-0

Project description:To servey the methylome changes by mutation of a DNA demethylase ROS1, we performed the Next-gen sequencing (NGS) associated whole genome bisulfite sequencing (BS-seq) analysis. Two ROS1 knockout lines (ros1-3 and ros1-4; Penterman et al. 2007 [PMID: 17409185]) were subjected in this study.

2018-12-31 | GSE64569 | GEO

Whole genome bisulfite sequencing of hdp1-1 and hdp2-1and other relative mutants (Col-0 background)

Project description:Using whole genome bisulfite sequencing to provide single-base resulution of DNA methylation status in 35S-SUC WT, hdp1-1 and hdp2-1, mbd7, idm1, and hdp2mbd7 double mutants

2016-12-29 | GSE89294 | GEO

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

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

Arabidopsis thaliana

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

| PRJNA149493 | ENA

Whole genome bisulfite sequencing of two/three-week-old Arabidopsis thaliana plants of the genotypes Col-0, nrpe1-11 and ros1-4.

Project description:This study used the mutants nrpe1-11 and ros1-4 to assess the impact of RNA-directed DNA methylation (RdDM) and ROS1 on the Arabidopsis thaliana (ecotype Col-0) methylome.

2022-11-07 | GSE199625 | GEO

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

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

2016-11-01 | GSE76382 | GEO

MethlyC-Seq of Col-0 WT, idm3-3 and mbd7-2 (CS876032) mutant

Project description:In eukaryotes, heterochromatin is characterized by numerous epigenetic marks, including DNA methylation. Spreading of these marks into nearby active genes must be avoided in order to maintain appropriate gene expression. Here, we uncover Arabidopsis Methyl-CpG-Binding Domain 7 (MBD7) and Increased DNA Methylation 3 (IDM3) as anti-silencing factors that prevent transgene repression and genome-wide DNA hypermethylation. MBD7 preferentially binds to highly methylated, CG-dense regions associated with non-CG methylation and physically associates with other anti-silencing factors, including the histone acetyltransferase IDM1, IDM2, and IDM3. IDM1 and IDM2 were previously shown to facilitate active DNA demethylation by the 5-methylcytosine DNA glycosylase/lyase ROS1. Thus, MBD7 tethers the IDM proteins to methylated DNA, which enables the function of DNA demethylases that in turn establish chromatin boundaries and limit DNA methylation.

2015-01-29 | GSE59712 | GEO

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

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