GEO DataSets

(Submitter supplied) The PIWI-interacting RNA (piRNA) pathway plays a crucial role in preventing endogenous genomic parasites, transposable elements (TEs), from damaging the genetic material of animal gonadal cells. Specific regions in the genome, called piRNA clusters, define each species’ piRNA repertoire and therefore its capacity to recognize and silence transposons. In the somatic cells of the Drosophila melanogaster ovary, the flamenco (flam) unistrand cluster is the main source of piRNAs and primarily regulates Gypsy family TEs that are able to form virus-like particles and infect neighbouring germ cells. more...

Organism:

Drosophila persimilis; Drosophila ficusphila; Drosophila erecta; Drosophila melanogaster; Drosophila pseudoobscura; Drosophila yakuba; Drosophila simulans; Drosophila suzukii; Drosophila biarmipes

Type:

Genome binding/occupancy profiling by high throughput sequencing

9 related Platforms

18 Samples

Download data: BW, NARROWPEAK

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

Organism:

Drosophila ananassae; Drosophila subobscura; Drosophila virilis; Drosophila biarmipes; Drosophila melanogaster; Drosophila simulans; Drosophila yakuba; Drosophila suzukii; Drosophila erecta; Drosophila pseudoobscura; Drosophila ficusphila; Drosophila mojavensis; Drosophila persimilis; Drosophila azteca; Drosophila takahashii

Type:

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

20 related Platforms

118 Samples

Download data: BW, NARROWPEAK

(Submitter supplied) The PIWI-interacting RNA (piRNA) pathway plays a crucial role in preventing endogenous genomic parasites, transposable elements (TEs), from damaging the genetic material of animal gonadal cells. Specific regions in the genome, called piRNA clusters, define each species’ piRNA repertoire and therefore its capacity to recognize and silence transposons. In the somatic cells of the Drosophila melanogaster ovary, the flamenco (flam) unistrand cluster is the main source of piRNAs and primarily regulates Gypsy family TEs that are able to form virus-like particles and infect neighbouring germ cells. more...

Organism:

Drosophila simulans; Drosophila yakuba; Drosophila suzukii; Drosophila ananassae; Drosophila erecta; Drosophila mojavensis; Drosophila virilis; Drosophila azteca; Drosophila biarmipes; Drosophila bifasciata; Drosophila melanogaster; Drosophila pseudoobscura; Drosophila subobscura; Drosophila ficusphila; Drosophila persimilis; Drosophila takahashii

Type:

Non-coding RNA profiling by high throughput sequencing

15 related Platforms

65 Samples

Download data: BW

(Submitter supplied) The PIWI-interacting RNA (piRNA) pathway plays a crucial role in preventing endogenous genomic parasites, transposable elements (TEs), from damaging the genetic material of animal gonadal cells. Specific regions in the genome, called piRNA clusters, define each species’ piRNA repertoire and therefore its capacity to recognize and silence transposons. In the somatic cells of the Drosophila melanogaster ovary, the flamenco (flam) unistrand cluster is the main source of piRNAs and primarily regulates Gypsy family TEs that are able to form virus-like particles and infect neighbouring germ cells. more...

Organism:

Drosophila erecta; Drosophila mojavensis; Drosophila virilis; Drosophila azteca; Drosophila biarmipes; Drosophila simulans; Drosophila yakuba; Drosophila suzukii; Drosophila bifasciata; Drosophila melanogaster; Drosophila pseudoobscura; Drosophila subobscura; Drosophila ficusphila; Drosophila ananassae; Drosophila persimilis; Drosophila takahashii

Type:

Expression profiling by high throughput sequencing

10 related Platforms

35 Samples

Download data: BW

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

Organism:

Drosophila melanogaster; Drosophila mojavensis; Drosophila pseudoobscura; Drosophila bifasciata; Drosophila eugracilis

Type:

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

5 related Platforms

27 Samples

Download data: BED, TXT

(Submitter supplied) Organisms require mechanisms to distinguish self and non-self RNA. This distinction is crucial to initiate the biogenesis of piRNAs. In Drosophila ovaries, PIWI-guided slicing and the recognition of piRNA precursor transcripts by the DEAD-box RNA helicase Yb are the two known mechanisms to initiate biogenesis in the germline and the soma, respectively. Both, the PIWI proteins and Yb are highly conserved across most Drosophila species and are thought to be essential to the piRNA pathway and for silencing TEs. more...

Organism:

Drosophila bifasciata; Drosophila pseudoobscura

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platforms:

GPL32666 GPL32664

6 Samples

Download data: BED

(Submitter supplied) Organisms require mechanisms to distinguish self and non-self RNA. This distinction is crucial to initiate the biogenesis of piRNAs. In Drosophila ovaries, PIWI-guided slicing and the recognition of piRNA precursor transcripts by the DEAD-box RNA helicase Yb are the two known mechanisms to initiate biogenesis in the germline and the soma, respectively. Both, the PIWI proteins and Yb are highly conserved across most Drosophila species and are thought to be essential to the piRNA pathway and for silencing TEs. more...

Organism:

Drosophila eugracilis; Drosophila pseudoobscura; Drosophila bifasciata

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL32664 GPL32665 GPL32666

4 Samples

Download data: BED

(Submitter supplied) Organisms require mechanisms to distinguish self and non-self RNA. This distinction is crucial to initiate the biogenesis of piRNAs. In Drosophila ovaries, PIWI-guided slicing and the recognition of piRNA precursor transcripts by the DEAD-box RNA helicase Yb are the two known mechanisms to initiate biogenesis in the germline and the soma, respectively. Both, the PIWI proteins and Yb are highly conserved across most Drosophila species and are thought to be essential to the piRNA pathway and for silencing TEs. more...

Organism:

Drosophila mojavensis; Drosophila bifasciata; Drosophila melanogaster; Drosophila pseudoobscura; Drosophila eugracilis

Type:

Non-coding RNA profiling by high throughput sequencing

5 related Platforms

17 Samples

Download data: BED, TXT

(Submitter supplied) Small RNA sequencing from Drosophila pseudoobscura males and virgin females.

Organism:

Drosophila pseudoobscura

Type:

Non-coding RNA profiling by high throughput sequencing

Platform:

GPL22420

4 Samples

Download data: TAB

(Submitter supplied) We use closely-related Drosophila species to understand mechanosensation and how hearing as a form of mechanosensation drives reproductive isolation and evolution. In particular, we performed RNA-seq to obtain the Johnston's Organ transcriptomes of six closely-related Drosophila species, namely, D.melanogaster, D.yakuba, D.pseudoobscura and D.persimilis. Application of the Ornstein-Uhlenbeck model identified gene expression changes between the species' auditory structures. more...

Organism:

Drosophila simulans; Drosophila yakuba; Drosophila melanogaster; Drosophila pseudoobscura; Drosophila persimilis

Type:

Expression profiling by high throughput sequencing

5 related Platforms

5 Samples

Download data: TXT

(Submitter supplied) Expression profiling by high-throughput sequencing (RNA-seq) across eight WT Drosophila species - D. melanogaster, D. simulans, D. yakuba, D. ananassae, D. pseudoobscura, D. willistoni, D. mojavensis and D. virilis - and three tissues, namely, brain, eye-antennal and imaginal discs, at the stage of third instar larvae.

Organism:

Drosophila ananassae; Drosophila mojavensis; Drosophila virilis; Drosophila willistoni; Drosophila melanogaster; Drosophila pseudoobscura; Drosophila simulans; Drosophila yakuba

Type:

Expression profiling by high throughput sequencing

8 related Platforms

27 Samples

Download data: TXT

(Submitter supplied) RNA polymerase II (Pol II) pausing is a general regulatory step in transcription, yet the stability of paused Pol II varies widely between genes. Although paused Pol II stability correlates with core promoter elements, the contribution of individual sequences remains unclear, in part because no rapid assay is available for measuring the changes in Pol II pausing as a result of altered promoter sequences. more...

Organism:

Drosophila melanogaster; Drosophila pseudoobscura

Type:

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

Platforms:

GPL19132 GPL23885

144 Samples

Download data: BW

(Submitter supplied) The earliest stage of animal development is controlled by maternally deposited mRNA transcripts and proteins. Once the zygote is able to transcribe its own genome, maternal transcripts are degraded, in a tightly regulated process known as the maternal to zygotic transition (MZT). While this process has been well-studied within model species, we have little knowledge of how the pools of maternal and zygotic transcripts evolve. more...

Organism:

Drosophila mauritiana; Drosophila mojavensis; Drosophila pseudoobscura; Drosophila willistoni; Drosophila persimilis; Drosophila santomea; Drosophila melanogaster; Drosophila yakuba; Drosophila ananassae; Drosophila erecta; Drosophila miranda; Drosophila sechellia; Drosophila simulans; Drosophila virilis

Type:

Expression profiling by high throughput sequencing; Third-party reanalysis

14 related Platforms

119 Samples

Download data: TXT

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

Organism:

Drosophila ananassae; Drosophila erecta; Drosophila mojavensis; Drosophila virilis; Drosophila willistoni; Drosophila sechellia; Drosophila simulans; Drosophila yakuba; Drosophila melanogaster; Drosophila pseudoobscura; Drosophila persimilis; Homo sapiens

Type:

Genome binding/occupancy profiling by high throughput sequencing

15 related Platforms

175 Samples

Download data: BW

(Submitter supplied) Transcriptional enhancers function as docking platforms for combinations of transcription factors to control gene expression. How enhancer sequences determine nucleosome occupancy, transcription factor recruitment, and transcriptional activation in vivo remains unclear. Using ATAC-seq across a panel of Drosophila inbred strains we found that SNPs affecting Grainyhead binding sites causally determine the accessibility of epithelial enhancers. more...

Organism:

Drosophila erecta; Drosophila mojavensis; Drosophila virilis; Drosophila willistoni; Drosophila persimilis; Drosophila melanogaster; Drosophila pseudoobscura; Drosophila yakuba; Drosophila ananassae; Drosophila sechellia; Drosophila simulans

Type:

Genome binding/occupancy profiling by high throughput sequencing

12 related Platforms

24 Samples

Download data: BW

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

Organism:

Drosophila pseudoobscura; Drosophila melanogaster; Drosophila ananassae; Drosophila erecta; Drosophila simulans

Type:

Expression profiling by high throughput sequencing

5 related Platforms

119 Samples

Download data: BW

(Submitter supplied) Multicellular development is largely determined by transcriptional regulatory programs that orchestrate the expression of thousands of protein-coding and noncoding genes. To decipher the genomic regulatory code that specifies these programs, and to investigate globally the developmental relevance of noncoding transcription, we profiled genome-wide promoter activity throughout embryonic development in 5 Drosophila species. more...

Organism:

Drosophila pseudoobscura

Type:

Expression profiling by high throughput sequencing

Platform:

GPL13310

29 Samples

Download data: BED, BW, TXT

(Submitter supplied) Annotation of small RNAs from 11 Drosophila species for the purpose of non-coding RNA annotation and comparative genomics assessment.

Organism:

Drosophila ananassae; Drosophila erecta; Drosophila virilis; Drosophila grimshawi; Drosophila sechellia; Drosophila simulans; Drosophila yakuba; Drosophila pseudoobscura; Drosophila mojavensis; Drosophila persimilis; Drosophila willistoni

Type:

Non-coding RNA profiling by high throughput sequencing

22 related Platforms

56 Samples

Download data: TXT

(Submitter supplied) ChIP-Seq against Bicoid on manually dissected posterior thirds of Drosophila Melanogaster early stage 5 embryos.

Organism:

Drosophila melanogaster; Drosophila pseudoobscura

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platforms:

GPL24001 GPL17275

2 Samples

Download data: WIG

(Submitter supplied) This data set contains polyA+ transcriptional profiling of sexed adult tissues/body parts and whole adults of eight Drosophila species: Drosophila melanogaster (FBsp00000001) from two strains [w1118 (FBst0005905) and Oregon-R (FBst0025211)], Drosophila yakuba (FBsp00000254), Drosophila ananassae (FBsp00000052), Drosophila pseudoobscura (FBsp00000201), Drosophila persimilis (FBsp00000188), Drosophila willistoni (FBsp00000253), Drosophila mojavensis (FBsp00000160), and Drosophila virilis (FBsp00000251). more...

Organism:

Drosophila mojavensis; Drosophila virilis; Drosophila willistoni; Drosophila yakuba; synthetic construct; Drosophila ananassae; Drosophila persimilis; Drosophila melanogaster; Drosophila pseudoobscura

Type:

Expression profiling by high throughput sequencing

12 related Platforms

856 Samples

Download data: PDF, TXT