GEO DataSets

(Submitter supplied) Small RNAs (21-24 nt) are involved in gene regulation through translation inhibition, mRNA cleavage, or directing chromatin modifications. In rice, currently ~240 miRNAs have been annotated. We sequenced more than four million small RNAs from rice and identified another 24 miRNA genes. Among these, we found a novel class of miRNAs that derive from natural cis-antisense transcript pairs. This configuration generates miRNAs that can perfectly match their targets. more...

Organism:

Oryza sativa

Type:

Expression profiling by MPSS

Platforms:

GPL3777 GPL3776

5 Samples

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(Submitter supplied) Identification of all expressed transcripts in a sequenced complex genome is technically challenging, but essential for systems biology and genome analysis. We used the transcriptional profiling technology called ‘massively parallel signature sequencing’ (MPSS) to develop a comprehensive expression atlas of rice (Oryza sativa cv Nipponbare). A total of 46,971,553 mRNA transcripts from 22 libraries, and 2,953,855 small RNAs from three libraries were sequenced. more...

Organism:

Oryza sativa

Type:

Expression profiling by MPSS

Platforms:

GPL3777 GPL3776

21 Samples

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

Organism:

Oryza sativa

Type:

Expression profiling by MPSS

Platforms:

GPL3777 GPL3776

2 Samples

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(Submitter supplied) The centromere is the chromosomal site for assembly of the kinetochore where spindle fibers attach during cell division. In most muticellular eukaryotes, centromeres are composed of long tracks of satellite repeats that are recalcitrant to sequencing and fine scale genetic mapping. Here we report the genomic and genetic characterization of the complete centromere of rice chromosome 3. Using a DNA fiber-fluorescence in situ hybridization approach, we demonstrated that the centromere of chromosome 3 (Cen3) contains ~414 kb of the centromeric satellite repeat CentO. more...

Organism:

Oryza sativa

Type:

Expression profiling by MPSS

Platform:

GPL3777

1 Sample

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(Submitter supplied) mRNA MPSS signatures capture the 17 bases from near the 3' end of poly(A)+ transcripts All MPSS was performed as described by Brenner et al. (Nat Biotechnol. 2000 18:630).

Organism:

Oryza sativa

4 Series

19 Samples

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