GEO DataSets

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Arabidopsis thaliana

Type:

Expression profiling by array; Genome binding/occupancy profiling by genome tiling array

Platforms:

GPL3371 GPL6177

8 Samples

Download data: GFF, PAIR, TXT

(Submitter supplied) For the histone methylation analysis of undifferentiated and differentiated tissues a meristem enriched fraction and young leaves (up to 3 mm leaf blade length) were isolated from clavata3-9 plants. Clavata3-9 mutants harbour larger shoot apical meristems than wild type plants enabling the preparation of meristematic tissue by manual dissection. Samples from both tissues were used for expression and histone H3 lysine 27 trimethylation (H3K27me3) analysis. more...

Organism:

Arabidopsis thaliana

Type:

Genome binding/occupancy profiling by genome tiling array

Platform:

GPL3371

4 Samples

Download data: GFF, PAIR, XLSX

(Submitter supplied) DNA methylation is an epigenetic mark associated with transposable element silencing and gene imprinting in flowering plants and mammals. In plants, imprinting occurs in the endosperm, which nourishes the embryo during seed development. We have profiled Arabidopsis DNA methylation genome-wide in the embryo and endosperm. Large-scale methylation changes accompany endosperm development and endosperm-specific gene expression. more...

Organism:

Arabidopsis thaliana

Type:

Methylation profiling by genome tiling array; Methylation profiling by high throughput sequencing

Platforms:

GPL9062 GPL3371

10 Samples

Download data: BEDGRAPH, GFF, PAIR, TXT

(Submitter supplied) Eukaryotic chromatin is separated into functional domains differentiated by posttranslational histone modifications, histone variants, and DNA methylation. Methylation is associated with repression of transcriptional initiation in plants and animals, and is frequently found in transposable elements. Proper methylation patterns are critical for eukaryotic development, and aberrant methylation-induced silencing of tumor suppressor genes is a common feature of human cancer. more...

Organism:

Arabidopsis thaliana

Type:

Methylation profiling by genome tiling array

Platform:

GPL3371

21 Samples

Download data: GFF, PAIR

(Submitter supplied) Cytosine DNA methylation is considered to be a stable epigenetic mark, but active demethylation has been observed in both plants and animals. In Arabidopsis thaliana, DNA glycosylases of the DEMETER (DME) family remove methylcytosines from DNA. Demethylation by DME is necessary for genomic imprinting and demethylation by a related protein, REPRESSOR OF SILENCING1, which prevents gene silencing in a transgenic background. more...

Organism:

Arabidopsis thaliana

Type:

Methylation profiling by genome tiling array

Platform:

GPL3371

2 Samples

Download data: GFF

(Submitter supplied) Cytosine methylation, a common form of DNA modification that antagonizes transcriptional initiation, is found at transposons and repeats in vertebrates, plants, and fungi. Here we have mapped DNA methylation in the entire Arabidopsis thaliana genome at high resolution. DNA methylation covers transposons and is present within about 20% of Arabidopsis genes. Methylation within genes is conspicuously biased away from gene ends, suggesting a dependence on RNA polymerase transit. more...

Organism:

Arabidopsis thaliana

Type:

Expression profiling by genome tiling array; Genome binding/occupancy profiling by genome tiling array; Methylation profiling by array

Platform:

GPL3371

5 Samples

Download data: GFF, TXT

(Submitter supplied) Arabidopsis tiling array using NimbleGen platform (DesignID=2482). TIGR release 5.0, 1/22/2004 (ftp://ftp.arabidopsis.org/home/tair/Sequences/whole_chromosomes/). Entire genome, isothermal probes averaging 50 base pairs at 300 base pair intervals. Protocol: http://www.nimblegen.com/products/chip/index.html

Organism:

Arabidopsis thaliana

6 Series

35 Samples

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