GEO DataSets

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

Organism:

Oryza glaberrima; Oryza punctata; Sorghum bicolor; Oryza sativa Japonica Group; Leersia perrieri; Oryza sativa; Oryza brachyantha

Type:

Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing; Methylation profiling by high throughput sequencing; Non-coding RNA profiling by high throughput sequencing

8 related Platforms

47 Samples

Download data: BED, BEDGRAPH, FPKM_TRACKING

(Submitter supplied) How heterochromatin genes evolve as ‘gene islands’ to fit into the repressive chromatin environment in plants are poorly understood. To address this question, we performed a comprehensive epigenetic profiling in the genus Oryza with high quality BAC-assembled regional sequences and near gap-free genomes. Comparative analyses of a heterochromatin knob demonstrated the dynamics of chromatin states (heterochromatin versus euchromatin) among the Oryza species in a phylogenetic context. more...

Organism:

Leersia perrieri; Oryza brachyantha; Oryza glaberrima; Oryza sativa Japonica Group; Oryza punctata; Sorghum bicolor

Type:

Genome binding/occupancy profiling by high throughput sequencing

6 related Platforms

38 Samples

Download data: BED

(Submitter supplied) How heterochromatin genes evolve as ‘gene islands’ to fit into the repressive chromatin environment in plants are poorly understood. To address this question, we performed a comprehensive epigenetic profiling in the genus Oryza with high quality BAC-assembled regional sequences and near gap-free genomes. Comparative analyses of a heterochromatin knob demonstrated the dynamics of chromatin states (heterochromatin versus euchromatin) among the Oryza species in a phylogenetic context. more...

Organism:

Sorghum bicolor; Oryza sativa Japonica Group; Leersia perrieri; Oryza brachyantha; Oryza punctata; Oryza glaberrima

Type:

Expression profiling by high throughput sequencing

6 related Platforms

6 Samples

Download data: FPKM_TRACKING

(Submitter supplied) In monocots other than the cereals maize and rice, the repertoire and diversity of microRNAs (miRNAs) and the populations of phased, secondary, small interfering RNAs (phasiRNAs) are poorly characterized. To remedy this, we sequenced small RNAs (sRNAs) from vegetative and dissected inflorescence tissue in 28 phylogenetically diverse monocots and from several early-diverging angiosperm lineages, as well as publicly available data from 10 additional monocot species. more...

Organism:

Sorghum bicolor; Zea mays; Cyperus alternifolius; Zostera marina; Streptochaeta angustifolia; Elaeis guineensis; Nymphaea colorata; Echinodorus uruguayensis; Raddia brasiliensis; Prosthechea radiata; Colocasia esculenta; Lemna gibba; Oryza glaberrima; Ananas comosus; Cocos nucifera; Phyllostachys edulis; Phoenix dactylifera; Hemerocallis lilioasphodelus; Pharus parvifolius; Tradescantia fluminensis; Goudaea ospinae; Acorus calamus; Setaria viridis; Canna indica; Anomochloa marantoidea; Kniphofia uvaria; Phalaenopsis equestris; Sagittaria montevidensis; Freycinetia cumingiana; Liriope muscari; Musa acuminata var. zebrina; Musa ABB Group; Musa acuminata AAA Group

Type:

Non-coding RNA profiling by high throughput sequencing

34 related Platforms

195 Samples

Download data: TXT

(Submitter supplied) Rice was domesticated independently in Asia and Africa, leading to two distinct but closely related crop species, Oryza sativa and Oryza glaberrima, respectively. The two domestications lead to morphological changes, in which a higher branching complexity of the panicles, influencing seed production and crop yield. Although much emphasis was placed on changes in transcriptional regulation during rice domestication and improvement, no large-scale study of small RNA regulation changes during domestication has been reported so far. more...

Organism:

Oryza glaberrima; Oryza barthii

Type:

Non-coding RNA profiling by high throughput sequencing

Platforms:

GPL17362 GPL17363

2 Samples

Download data: TXT

(Submitter supplied) Examination of 3 tissue types in Oryza glabberima (accession CG14) by high throughput sequencing for small RNA discovery and expression profiling

Organism:

Oryza glaberrima

Type:

Expression profiling by high throughput sequencing; Non-coding RNA profiling by high throughput sequencing

Platform:

GPL13371

6 Samples

Download data: TXT