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Items: 1 to 20 of 709

1.

Genomics analysis of hexanoic acid exposure in Drosophila species

(Submitter supplied) We analyze the gene expression response to hexanoic acid in Drosophila simulans, Drosophila melanogaster, and Drosophila sechellia
Organism:
Drosophila melanogaster; Drosophila sechellia; Drosophila simulans
Type:
Expression profiling by high throughput sequencing
Platforms:
GPL24063 GPL27544 GPL21306
18 Samples
Download data: TXT
Series
Accession:
GSE185176
ID:
200185176
2.

Evolved differences in cis and trans regulation between the maternal and zygotic mRNA complements in the Drosophila embryo

(Submitter supplied) During embryogenesis in animals, initial developmental processes are driven entirely by maternally provided gene products that are deposited into the oocyte. The zygotic genome is transcriptionally activated later, when developmental control is handed off from maternal gene products to the zygote during the maternal to zygotic transition (MZT). The MZT is highly regulated and conserved across all animals, and while some details change across model systems where it has been studied, most are too evolutionarily diverged to make comparisons as to how this process evolves. more...
Organism:
Drosophila mauritiana x Drosophila simulans; Drosophila sechellia x Drosophila mauritiana; Drosophila simulans x Drosophila mauritiana; Drosophila mauritiana x Drosophila sechellia; Drosophila mauritiana; Drosophila simulans; Drosophila simulans x Drosophila sechellia; Drosophila sechellia
Type:
Expression profiling by high throughput sequencing
8 related Platforms
63 Samples
Download data: TXT
Series
Accession:
GSE136646
ID:
200136646
3.

Comparative transcriptomics in the Drosophila Auditory Organ

(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 melanogaster; Drosophila pseudoobscura; Drosophila persimilis; Drosophila simulans; Drosophila yakuba
Type:
Expression profiling by high throughput sequencing
5 related Platforms
5 Samples
Download data: TXT
Series
Accession:
GSE100837
ID:
200100837
4.

Evolutionary changes in cis regulation are associated with altered chromatin activity and gene expression levels in the Drosophila eye development (RNA-Seq)

(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 melanogaster; Drosophila pseudoobscura; Drosophila ananassae; Drosophila mojavensis; Drosophila virilis; Drosophila willistoni; Drosophila simulans; Drosophila yakuba
Type:
Expression profiling by high throughput sequencing
8 related Platforms
27 Samples
Download data: TXT
Series
Accession:
GSE59707
ID:
200059707
5.

Total RNA from different species fly heads

(Submitter supplied) Total RNA seq from different species fly heads at different temperatures
Organism:
Drosophila virilis; Drosophila simulans; Drosophila yakuba
Type:
Expression profiling by high throughput sequencing
Platforms:
GPL19131 GPL23865 GPL20240
18 Samples
Download data: TXT
Series
Accession:
GSE124142
ID:
200124142
6.

Differences in circadian rhythms in fly at different temperatures

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Drosophila virilis; Drosophila melanogaster; Drosophila simulans; Drosophila yakuba
Type:
Non-coding RNA profiling by high throughput sequencing; Expression profiling by high throughput sequencing; Expression profiling by array
5 related Platforms
104 Samples
Download data: CEL
Series
Accession:
GSE124136
ID:
200124136
7.

Genomics analysis of L-DOPA exposure in Drosophila sechellia

(Submitter supplied) The dietary specialist fruit fly Drosophila sechellia evolved to feed primarily on the toxic fruit of Morinda citrifolia. Seeking the basis of adaptations to the unique chemistry of its host plant, we profiled genome-wide gene expression response to L-DOPA because it is highly abundant in M. citrifolia, critical for reproductive success of D. sechellia, and may influence toxin resistance in this species. more...
Organism:
Drosophila melanogaster; Drosophila sechellia; Drosophila simulans
Type:
Expression profiling by high throughput sequencing
Platforms:
GPL21306 GPL24063 GPL27544
18 Samples
Download data: TXT
Series
Accession:
GSE138119
ID:
200138119
8.

Evolution of maternal and zygotic mRNA complements in the early Drosophila embryo

(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 ananassae; Drosophila erecta; Drosophila miranda; Drosophila sechellia; Drosophila simulans; Drosophila virilis; Drosophila melanogaster; Drosophila yakuba; Drosophila persimilis; Drosophila santomea
Type:
Expression profiling by high throughput sequencing; Third-party reanalysis
14 related Platforms
119 Samples
Download data: TXT
Series
Accession:
GSE112858
ID:
200112858
9.

Run or die in the evolution of de novo microRNAs

(Submitter supplied) MicroRNAs (miRNAs) are a class of small, endogenous RNAs that regulate mRNA expressions post-transcriptionally. To study their expression, we collected and sequenced small RNA libraries in Drosophila species. To survey their regulation divergence, we dissected testes from miR-983 mutant and control flies in two sibling species and performed an RNA-seq analysis.
Organism:
Drosophila erecta; Drosophila sechellia; Drosophila melanogaster; Drosophila simulans
Type:
Expression profiling by high throughput sequencing; Non-coding RNA profiling by high throughput sequencing
4 related Platforms
10 Samples
Download data: FA, XLSX
Series
Accession:
GSE110086
ID:
200110086
10.

The transcription factor Grainyhead primes epithelial enhancers for spatiotemporal activation by displacing nucleosomes

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Drosophila ananassae; Drosophila erecta; Drosophila mojavensis; Drosophila virilis; Drosophila willistoni; Drosophila melanogaster; Drosophila pseudoobscura; Drosophila persimilis; Homo sapiens; Drosophila sechellia; Drosophila simulans; Drosophila yakuba
Type:
Genome binding/occupancy profiling by high throughput sequencing
15 related Platforms
175 Samples
Download data: BW
Series
Accession:
GSE102441
ID:
200102441
11.

The transcription factor Grainyhead primes epithelial enhancers for spatiotemporal activation by displacing nucleosomes [evolutionary study]

(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 melanogaster; Drosophila pseudoobscura; Drosophila yakuba; Drosophila ananassae; Drosophila sechellia; Drosophila simulans; Drosophila persimilis
Type:
Genome binding/occupancy profiling by high throughput sequencing
12 related Platforms
24 Samples
Download data: BW
Series
Accession:
GSE102439
ID:
200102439
12.

Simple and Complex Centromeric Satellites in Drosophila Sibling Species

(Submitter supplied) Centromeres are the chromosomal sites of assembly for kinetochores, the protein complexes that attach to spindle fibers and mediate separation of chromosomes to daughter cells in mitosis and meiosis. In most multicellular organisms, centromeres comprise a single specific family of tandem repeats, often 100-400 bp in length, found on every chromosome, typically in one location within heterochromatin. more...
Organism:
Drosophila melanogaster; Drosophila simulans
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platforms:
GPL17275 GPL22293
19 Samples
Download data: FASTA, RTF
Series
Accession:
GSE105100
ID:
200105100
13.

Drosophila species embryonic development RAMPAGE time series

(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
Series
Accession:
GSE89335
ID:
200089335
14.

Drosophila simulans embryonic development RAMPAGE time series

(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 simulans
Type:
Expression profiling by high throughput sequencing
Platform:
GPL13306
22 Samples
Download data: BED, BW, TXT
Series
Accession:
GSE89302
ID:
200089302
15.

miR-975 overexpression effect on Drosophila cell lines

(Submitter supplied) We overexpressed the conspecific miR-975 in the cell lines derived from multiple Drosophila species (i.e. S2 cells from Drosophila melanogaster; ML82-19a cells from Drosophila simulans and WR-Dv-1 cells from Drosophila virilis). Comparison of the miR-975 effect between different cell lines provide insight into the rewiring of regulatory network through the evolution of new microRNA.
Organism:
Drosophila melanogaster; Drosophila simulans; Drosophila virilis
Type:
Expression profiling by high throughput sequencing
Platforms:
GPL13306 GPL13304 GPL13313
12 Samples
Download data: TXT
Series
Accession:
GSE107390
ID:
200107390
16.

Small RNAs from 11 Drosophila species

(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 pseudoobscura; Drosophila mojavensis; Drosophila persimilis; Drosophila willistoni; Drosophila grimshawi; Drosophila sechellia; Drosophila simulans; Drosophila yakuba
Type:
Non-coding RNA profiling by high throughput sequencing
22 related Platforms
56 Samples
Download data: TXT
Series
Accession:
GSE98013
ID:
200098013
17.

Spatially varying cis-regulatory divergence in Drosophila embryos elucidates cis-regulatory logic

(Submitter supplied) Both cis- and trans-acting changes could accumulate and participate in complex interactions, so to isolate the cis-regulatory component of patterning evolution, we measured allele-specific spatial gene expression patterns in Drosophila melanogaster × D. simulans hybrid embryos. RNA-seq of cryosectioned slices revealed 55 genes with strong spatially-varying allele-specific expression, and several hundred more with weaker but significant spatial divergence. more...
Organism:
Drosophila melanogaster; Drosophila simulans; Drosophila melanogaster x Drosophila simulans
Type:
Expression profiling by high throughput sequencing
4 related Platforms
186 Samples
Download data: TSV, TXT
Series
Accession:
GSE102233
ID:
200102233
18.

Pervasive epigenetic effects of Drosophila euchromatic transposable elements impact their evolution

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Drosophila melanogaster; Drosophila simulans
Type:
Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing
Platforms:
GPL13304 GPL13306
22 Samples
Download data: BW, TXT
Series
Accession:
GSE94742
ID:
200094742
19.

Pervasive epigenetic effects of Drosophila euchromatic transposable elements impact their evolution [RNA-seq]

(Submitter supplied) We study the relatively unexplored evolutionary consequences of the epigenetic effects of transpoable elements (TEs) by providing the first genome-wide quantification of such effects in wild-derived D. melanogaster and D. simulans strains. Surprisingly, over half of euchromatic TEs show spread of repressive epigenetic marks to nearby DNA, resulting in differential epigenetic states of homologous genic alleles and, in return, selection against TEs. more...
Organism:
Drosophila simulans; Drosophila melanogaster
Type:
Expression profiling by high throughput sequencing
Platforms:
GPL13306 GPL13304
6 Samples
Download data: TXT
Series
Accession:
GSE94741
ID:
200094741
20.

Pervasive epigenetic effects of Drosophila euchromatic transposable elements impact their evolution [ChIP-seq]

(Submitter supplied) We study the relatively unexplored evolutionary consequences of the epigenetic effects of transpoable elements (TEs) by providing the first genome-wide quantification of such effects in wild-derived D. melanogaster and D. simulans strains. Surprisingly, over half of euchromatic TEs show spread of repressive epigenetic marks to nearby DNA, resulting in differential epigenetic states of homologous genic alleles and, in return, selection against TEs. more...
Organism:
Drosophila melanogaster; Drosophila simulans
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platforms:
GPL13304 GPL13306
16 Samples
Download data: BW
Series
Accession:
GSE94735
ID:
200094735
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