GEO DataSets

(Submitter supplied) To uncover the possible regulatory mechanism in regulatory alternative splicing in plants evolution, we used RNA-seq to compare the transcriptomes in Arabidopsis ecotypes Col and C24. We found different class of AS types have different regulatory mechanisms in Arabidopsis and divergence of alternative splicing in different class is varied in evolution. Sequence variation analysis had found evolution divergent AS events significantly altered their sequences compared to conserved events and the variation is AS class specific.

Organism:

Arabidopsis thaliana

Type:

Expression profiling by high throughput sequencing

Platform:

GPL9062

12 Samples

Download data: TXT

(Submitter supplied) Mechanism, inheritance patterns and biological significance remain unclear. Here, we generated genome-wide integrated maps of H3K27me3 modification and transcriptome for Col, C24 and their F1 hybrid, and their clf mutants. We found that H3K27me3 modification profiles were divergent between Col and C24, and were inherited mainly additively in hybrid. By comparing H3K27me3 modification ratio between parents to allelic H3K27me3 modification ratio in hybrid, we identified cis- and trans-regulatory divergence for H3K27me3 modification variation between Col and C24, and found that cis-regulatory divergence was the predominant contributor to H3K27me3 variation. more...

Organism:

Arabidopsis thaliana

Type:

Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL9062

18 Samples

Download data: TXT

(Submitter supplied) a2e_heterosis - h3k4me2_col_chr4 - Arabidopsis thaliana accessions (Col-0, C24 and Cvi) and their hybrid were used to investigate the dynamics of the epigenome after intraspecific hybridization between - H3K4me2 profiling in Col

Organism:

Arabidopsis thaliana

Type:

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

Platform:

GPL10772

8 Samples

Download data: GPR

(Submitter supplied) a2e_heterosis - h3k4me2_colxc24_chr4 - Arabidopsis thaliana accessions (Col-0, C24 and Cvi) and their hybrid were used to investigate the dynamics of the epigenome after intraspecific hybridization between - H3K4me2 profiling in ColxC24 hybrids

Organism:

Arabidopsis thaliana

Type:

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

Platform:

GPL10772

8 Samples

Download data: GPR

(Submitter supplied) a2e_heterosis - h3k27me3_col(c24) - Arabidopsis thaliana accessions (Col-0, C24 and Cvi) and their hybrid were used to investigate the dynamics of the epigenome after intraspecific hybridization between - H3K27me3 profiling in Col

Organism:

Arabidopsis thaliana

Type:

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

Platforms:

GPL10920 GPL10919

8 Samples

Download data: PAIR

(Submitter supplied) a2e_heterosis - h3k27me3_c24 - Arabidopsis thaliana accessions (Col-0, C24 and Cvi) and their hybrid were used to investigate the dynamics of the epigenome after intraspecific hybridization between - H3K27me3 profiling in C24

Organism:

Arabidopsis thaliana

Type:

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

Platforms:

GPL10919 GPL10920

7 Samples

Download data: PAIR

(Submitter supplied) a2e_heterosis - h3k27me3_colxc24 - Arabidopsis thaliana accessions (Col-0, C24 and Cvi) and their hybrid were used to investigate the dynamics of the epigenome after intraspecific hybridization between - H3K27me3 profiling in ColxC24 hybrids

Organism:

Arabidopsis thaliana

Type:

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

Platforms:

GPL10920 GPL10919

8 Samples

Download data: PAIR

(Submitter supplied) a2e_heterosis - h3k4me2_col(cvi) - Arabidopsis thaliana accessions (Col-0, C24 and Cvi) and their hybrid were used to investigate the dynamics of the epigenome after intraspecific hybridization between - H3K4me2 profiling in Col-0

Organism:

Arabidopsis thaliana

Type:

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

Platforms:

GPL10919 GPL10920

8 Samples

Download data: PAIR

(Submitter supplied) a2e_heterosis - h3k4me2_cvi - Arabidopsis thaliana accessions (Col-0, C24 and Cvi) and their hybrid were used to investigate the dynamics of the epigenome after intraspecific hybridization between - H3K4me2 profiling in Cvi

Organism:

Arabidopsis thaliana

Type:

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

Platforms:

GPL10920 GPL10919

8 Samples

Download data: PAIR

(Submitter supplied) a2e_heterosis - h3k4me2_colxcvi - Arabidopsis thaliana accessions (Col-0, C24 and Cvi) and their hybrid were used to investigate the dynamics of the epigenome after intraspecific hybridization between - H3K4me2 profiling in ColxCvi hybrids

Organism:

Arabidopsis thaliana

Type:

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

Platforms:

GPL10920 GPL10919

8 Samples

Download data: PAIR

(Submitter supplied) a2e_heterosis - h3k27me3_col(cvi) - Arabidopsis thaliana accessions (Col-0, C24 and Cvi) and their hybrid were used to investigate the dynamics of the epigenome after intraspecific hybridization between - H3K27me3 profiling in Col

Organism:

Arabidopsis thaliana

Type:

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

Platforms:

GPL10920 GPL10919

7 Samples

Download data: PAIR

(Submitter supplied) a2e_heterosis - h3k27me3_cvi - Arabidopsis thaliana accessions (Col-0, C24 and Cvi) and their hybrid were used to investigate the dynamics of the epigenome after intraspecific hybridization between - H3K27me3 profiling in Cvi seedlings

Organism:

Arabidopsis thaliana

Type:

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

Platforms:

GPL10919 GPL10920

8 Samples

Download data: PAIR

(Submitter supplied) a2e_heterosis - h3k27me3_colxcvi - Arabidopsis thaliana accessions (Col-0, C24 and Cvi) and their hybrid were used to investigate the dynamics of the epigenome after intraspecific hybridization between - H3K27me3 profiling in ColxCvi hybrids

Organism:

Arabidopsis thaliana

Type:

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

Platforms:

GPL10920 GPL10919

8 Samples

Download data: PAIR

(Submitter supplied) a2e_heterosis - h3k4me2_c24_chr4 - Arabidopsis thaliana accessions (Col-0, C24 and Cvi) and their hybrid were used to investigate the dynamics of the epigenome after intraspecific hybridization between - H3K4me2 profiling in C24

Organism:

Arabidopsis thaliana

Type:

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

Platform:

GPL10772

8 Samples

Download data: GPR

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

Organism:

Arabidopsis thaliana

Type:

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

Platforms:

GPL10920 GPL10919 GPL10772

104 Samples

Download data: GPR, PAIR

(Submitter supplied) a2e_heterosis - cgh_colvscvi_wg - Arabidopsis thaliana accessions (Col-0, C24 and Cvi) and their hybrid were used to investigate the dynamics of the epigenome after intraspecific hybridization between - Comparative genome hybridization between Arabidopsis thaliana accessions Col-0 and CVi.

Organism:

Arabidopsis thaliana

Type:

Genome variation profiling by genome tiling array

Platforms:

GPL10919 GPL10920

4 Samples

Download data: PAIR

(Submitter supplied) a2e_heterosis - cgh_colvsc24_wg - Arabidopsis thaliana accessions (Col-0, C24 and Cvi) and their hybrid were used to investigate the dynamics of the epigenome after intraspecific hybridization between - Comparative genome hybridization between Arabidopsis thaliana accessions Col-0 and C24.

Organism:

Arabidopsis thaliana

Type:

Genome variation profiling by genome tiling array

Platforms:

GPL10920 GPL10919

2 Samples

Download data: PAIR

(Submitter supplied) a2e_heterosis - cgh_colvsc24_chr4 - Arabidopsis thaliana accessions (Col-0, C24 and Cvi) and their hybrid were used to investigate the dynamics of the epigenome after intraspecific hybridization between - Comparative genome hybridization between Arabidopsis thaliana accessions Col-0 and C24 Keywords: cgh,chip-chip

Organism:

Arabidopsis thaliana

Type:

Genome variation profiling by genome tiling array

Platform:

GPL10772

4 Samples

Download data: GPR

(Submitter supplied) CURLY LEAF (CLF), the major histone methyltransferase of Polycomb Repressive Complex 2 (PRC2), modifies trimethylation of histone H3 lysine 27 (H3K27me3) and mediates dynamical chromatin repression in Arabidopsis. Our previous results suggested that CLF may play regulatory roles on seed size and lipid biosynthesis in embryos at the mature-green stages. Here we used strand specific RNA-sequencing to profile Arabidopsis transcriptomes obtained from isolated embryos at the mature-green stage of Col-0 and clf-28 plants. more...

Organism:

Arabidopsis thaliana

Type:

Expression profiling by high throughput sequencing

Platform:

GPL17639

4 Samples

Download data: FPKM_TRACKING

(Submitter supplied) CURLY LEAF (CLF), the major histone methyltransferase of Polycomb Repressive Complex 2 (PRC2), modifies trimethylation of histone H3 lysine 27 (H3K27me3) and mediates dynamical chromatin repression in Arabidopsis. Here we used strand specific RNA-sequencing to profile Arabidopsis transcriptomes obtained from roots, shoots, flowers and siliques of Col-0 and clf-28 plants. Our analysis identified a large number of CLF-regulatedd transcripts in Arabidopsis.

Organism:

Arabidopsis thaliana

Type:

Expression profiling by high throughput sequencing

Platform:

GPL13222

24 Samples

Download data: TXT