GEO DataSets

(Submitter supplied) Characterization of miRNAs in red flour beetle Tribolium castaneum by deep sequencing of two different RNA libraries.

Organism:

Tribolium castaneum

Type:

Non-coding RNA profiling by high throughput sequencing

Platform:

GPL11311

2 Samples

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(Submitter supplied) Next generation sequencing analysis of the small RNA and RNA profiles of successive time intervals during T. castaneum embryogenesis, and Drosophila unfertilized oocytes

Organism:

Drosophila melanogaster; Tribolium castaneum; Drosophila virilis

Type:

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

4 related Platforms

22 Samples

Download data: TXT

(Submitter supplied) High-throughput sequencing of Drosophila melanogaster small RNAs. total RNA, ~18-26nt RNAs isolated using PAGE, ligation to adapters requires 5' monophosphate and 3' OH Keywords: high-throughput 454 sequencing

Organism:

Drosophila melanogaster

Type:

Non-coding RNA profiling by high throughput sequencing

Platform:

GPL5061

10 Samples

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(Submitter supplied) see www.454.com

Organism:

Drosophila melanogaster

1 Series

10 Samples

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(Submitter supplied) Examination of temporal small RNA expression during the embryonic development, larval and adult stages of Drosophila virilis

Organism:

Drosophila virilis

Type:

Non-coding RNA profiling by high throughput sequencing

Platform:

GPL13313

11 Samples

Download data: TXT

(Submitter supplied) Is there a correlation between miRNA diversity and levels of organismic complexity? Exhibiting extraordinary levels of morphological and developmental complexity, insects are the most diverse animal class on earth. Their evolutionary success was in particular shaped by the innovation of holometabolan metamorphosis in endopterygotes. Previously, miRNA evolution had been linked to morphological complexity, but astonishing variation in the currently available miRNA complements of insects made this link unclear. more...

Organism:

Blattella germanica

Type:

Non-coding RNA profiling by high throughput sequencing

Platform:

GPL22010

4 Samples

Download data: CSV

(Submitter supplied) A series of transfections was performed in Drosophila S2 cells to explore: 1) the types of target sites that Drosophila microRNAs recognize, 2) the relative functional efficacy of these sites in mediating repression, and 3) the determinants that allow some sites to have greater potency than others. 3p-seq was also performed to help reannotate and quantify the landscape of 3' UTRs in Drosophila S2 cells.

Organism:

Drosophila melanogaster

Type:

Expression profiling by high throughput sequencing

Platform:

GPL9061

10 Samples

Download data: BED, TXT

(Submitter supplied) Using a tiled whole-genome microarray, we found that 58.2% of Tribolium castaneum genes are maternally loaded into eggs. Comparison of known Drosophila melanogaster maternal genes to our results showed widespread conservation of maternal function with T. castaneum. We also found many T. castaneum genes with previously identified gender or tissue specific expression were also maternally loaded into eggs. more...

Organism:

Tribolium castaneum

Type:

Expression profiling by genome tiling array

Platforms:

GPL15612 GPL15613 GPL15614

9 Samples

Download data: PAIR, TXT

(Submitter supplied) Curration of small RNAs from four melanogaster-subgroup species (Drosophila simulans, Drosophila sechellia, Drosophila erecta, and Drosophila yakuba) for the purpose of non-coding RNA annotation and comparative genomics assessment.

Organism:

Drosophila yakuba; Drosophila erecta; Drosophila sechellia; Drosophila simulans

Type:

Non-coding RNA profiling by high throughput sequencing

4 related Platforms

4 Samples

Download data: TXT

(Submitter supplied) Do miRNAs contribute to specify the germ-band type and the body structure in the insect embryo? Our goal was to address that issue by studying the changes in miRNA expression along the ontogeny of the German cockroach Blattella germanica, which is a short germ-band and hemimetabolan species. We sequenced small RNA libraries representing 11 developmental stages of B. germanica ontogeny (with especial emphasis on embryogenesis) and the changes in miRNA expression were examined. more...

Organism:

Blattella germanica

Type:

Non-coding RNA profiling by high throughput sequencing

Platform:

GPL22038

22 Samples

Download data: CSV

(Submitter supplied) MicroRNAs (miRNAs) are endogenous RNA molecules that contribute to the regulation of gene expression post-transcriptionally. Recently, patterns of sequence evolution and evolutionary emergence of miRNAs have been analyzed in detail. However, the extent to which miRNA expression levels vary within and between species, the role of stabilizing selection versus other evolutionary mechanisms in shaping the temporal dynamics of these changes, and how this variation might unveil the interplay between miRNAs and mRNAs remain poorly understood. more...

Organism:

Drosophila simulans; Drosophila melanogaster; Drosophila yakuba

Type:

Non-coding RNA profiling by high throughput sequencing

Platforms:

GPL9058 GPL9394 GPL11000

12 Samples

Download data: TXT, XLS

(Submitter supplied) We found two lines of evidence suggesting that miRNA abundance has been shaped by different evolutionary regimes at the two developmental stages. Attributed to functional constraints, which points to mechanisms more subtle and diverse than previously thought.

Organism:

Drosophila melanogaster; Drosophila simulans; Drosophila yakuba

Type:

Non-coding RNA profiling by array

Platform:

GPL18365

72 Samples

Download data: TXT

(Submitter supplied) We found two lines of evidence suggesting that miRNA abundance has been shaped by different evolutionary regimes at the two developmental stages attributed to functional constraints, which points to mechanisms more subtle and diverse than previously thought.

Organism:

Drosophila melanogaster

Type:

Expression profiling by array

Platform:

GPL14007

24 Samples

Download data: PAIR

(Submitter supplied) MicroRNAs (miRNA) are small, endogenous RNAs that regulate the expression of mRNAs posttranscriptionally. Evolutionarily new miRNAs, like new protein-coding genes, are dominantly expressed in reproductive organs. To dissect the evolutionary dynamics of new miRNAs in Drosophila spp, we sequenced small RNAs from two species of Drosophila, including four samples from reproductive organs and one sample from imaginal discs / CNS. more...

Organism:

Drosophila simulans; Drosophila pseudoobscura

Type:

Non-coding RNA profiling by high throughput sequencing

Platforms:

GPL13306 GPL13310

5 Samples

Download data: TXT

(Submitter supplied) 111,556,278 high-quality reads were obtained by a deep-sequencing approach that show an exact match to the genome of Meloidogyne incognita from the library of J2 juveniles of M. incognita (Mi). Based on these Solexa reads, 89 M. incognita microRNA genes were identified, which grouped into 67 non-redundant miRNAs with mature sequences. All of these candidate miRNAs were confirmed by qRT-PCR, and 26 of them could be detected in the library of the galls of cucumber root infected by M. more...

Organism:

Capsicum annuum; Meloidogyne incognita

Type:

Non-coding RNA profiling by high throughput sequencing

Platforms:

GPL11076 GPL11112

2 Samples

Download data: FA, TXT

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

Organism:

Caenorhabditis elegans

Type:

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

Platform:

GPL13657

22 Samples

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(Submitter supplied) In animals, microRNAs frequently form families with related sequences. The functional relevance of miRNA families and the relative contribution of family members to target repression have remained, however, largely unexplored. Here, we used the C. elegans miR-58 miRNA family, comprised primarily of four highly abundant members: miR-58.1, miR-80, miR-81 and miR-82, as a model to investigate the redundancy of miRNA family members and their impact on target expression in an in vivo setting. more...

Organism:

Caenorhabditis elegans

Type:

Expression profiling by high throughput sequencing

Platform:

GPL13657

12 Samples

Download data: TXT

(Submitter supplied) In animals, microRNAs frequently form families with related sequences. The functional relevance of miRNA families and the relative contribution of family members to target repression have remained, however, largely unexplored. Here, we used the C. elegans miR-58 miRNA family, comprised primarily of four highly abundant members: miR-58.1, miR-80, miR-81 and miR-82, as a model to investigate the redundancy of miRNA family members and their impact on target expression in an in vivo setting.

Organism:

Caenorhabditis elegans

Type:

Non-coding RNA profiling by high throughput sequencing

Platform:

GPL13657

10 Samples

Download data: TXT

(Submitter supplied) MicroRNAs (miRNA) are small, endogenous RNAs that regulate the expression of mRNAs posttranscriptionally. To identify miRNAs that produce twin products, we sequenced these five small RNA libraries and collected other published datasets to represent a systematic coverage of the major tissue types (head, body and sexual organs) in D. melanogaster. To survey the repression effects of twin miRs on the their targets, we dissected testes from adult flies that lacked Dm310s due to a knock-out mutation (Tang, et al. more...

Organism:

Drosophila melanogaster

Type:

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

Platforms:

GPL9061 GPL13304

9 Samples

Download data: FA, TXT, XLSX

(Submitter supplied) microRNAs (miRNAs) are important post-transcriptional regulators of gene expression. However, comprehensive expression profiles of miRNAs during spermatogenesis in mammals is lacking. In the present study, we sequenced small RNAs in highly purified spermatogonial stem cells (SSCs), spermatocytes in the pre-leptotene, leptotene, zygotene and pachytene stages, haploid round spermatids and spermatozoa. more...

Organism:

Oryctolagus cuniculus; Rattus norvegicus; Sus scrofa; Mus musculus

Type:

Non-coding RNA profiling by high throughput sequencing

4 related Platforms

20 Samples

Download data: TXT