GEO DataSets

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

Organism:

Drosophila melanogaster

Type:

Expression profiling by array; Expression profiling by high throughput sequencing; Genome variation profiling by high throughput sequencing

4 related Platforms

203 Samples

Download data: BAM, PAIR, SAM

(Submitter supplied) DNASeq reads from pools of female or male DrosDel and w1118 (parental strain for the Df/+ flies). Samples are named in this dataset according to the following sample naming scheme: tissue_genotype shorthand_sex_DNASeq_biological replicate #.

Organism:

Drosophila melanogaster

Type:

Genome variation profiling by high throughput sequencing

Platforms:

GPL13304 GPL9061

44 Samples

Download data: BAM

(Submitter supplied) RNA-Seq reads of DrosDel deficiency (Df/+) and parental strain diploid flies along with spike-in controls was performed on the Illumina platform. Samples are named in this dataset according to the following sample naming scheme: tissue_genotype shorthand_sex_biological replicate #_platform.

Organism:

Drosophila melanogaster

Type:

Expression profiling by high throughput sequencing

Platform:

GPL9061

9 Samples

Download data: SAM

(Submitter supplied) RNA-Seq reads of DrosDel deficiency (Df/+) and parental strain diploid flies along with spike-in controls was performed on the SOLiD platform. Samples are named in this dataset according to the following sample naming scheme: tissue_genotype shorthand_sex_biological replicate #_platform_technical replicate.

Organism:

Drosophila melanogaster

Type:

Expression profiling by high throughput sequencing

Platform:

GPL14601

16 Samples

Download data: SAM, TXT

(Submitter supplied) Microarray data of DrosDel deficiency (Df/+) and parental strain diploid flies along with spike-in controls was performed on the Nimblegen 12-plex array platform. Samples are named in this dataset according to the following sample naming scheme: tissue_genotype shorthand_sex_biological replicate #.

Organism:

Drosophila melanogaster

Type:

Expression profiling by array

Platform:

GPL8593

134 Samples

Download data: PAIR, TXT

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

Organism:

Drosophila melanogaster; Anopheles gambiae

Type:

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

Platforms:

GPL25232 GPL23323

32 Samples

Download data: BW

(Submitter supplied) Heteromorphic sex chromosomes induce potentially deleterious gene expression imbalances that are frequently corrected by dosage compensation (DC). Three distinct molecular strategies to achieve DC have been previously described in nematodes, fruit flies and mammals. The reason for these mechanistic differences remain unclear: Are they a consequence of distinct genomes and gene content, functional or ecological constraints, or random initial commitment to an evolutionary trajectory? Here, we study DC in the malaria mosquito Anopheles gambiae. more...

Organism:

Anopheles gambiae

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL25232

12 Samples

Download data: BW

(Submitter supplied) Heteromorphic sex chromosomes induce potentially deleterious gene expression imbalances that are frequently corrected by dosage compensation (DC). Three distinct molecular strategies to achieve DC have been previously described in nematodes, fruit flies and mammals. The reason for these mechanistic differences remain unclear: Are they a consequence of distinct genomes and gene content, functional or ecological constraints, or random initial commitment to an evolutionary trajectory? Here, we study DC in the malaria mosquito Anopheles gambiae. more...

Organism:

Anopheles gambiae; Drosophila melanogaster

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL25232 GPL23323

20 Samples

Download data: TXT

(Submitter supplied) To measure the response to gene dose, we performed mRNA-Seq of fly heads with molecularly defined deletions constructed from DrosDel deficiency lines (Ryder et al. Genetics 2007, 177(1):615-29) on the Illumina HiSeq 2000 platform.

Organism:

Drosophila melanogaster

Type:

Expression profiling by high throughput sequencing

Platform:

GPL13304

249 Samples

Download data: TXT

(Submitter supplied) MSL (Male-specific lethal) complex increases transcription on the single X chromosome of Drosophila males in order to equalize expression of X-linked genes between males (XY) and females (XX). The increase in transcript levels correlates with MSL- dependent acetylation of histone H4 at K16 within the bodies of active genes, but identification of the transcriptional step affected has not been possible. more...

Organism:

Drosophila melanogaster

Type:

Expression profiling by high throughput sequencing

Platform:

GPL9061

12 Samples

Download data: TXT

(Submitter supplied) MSL (Male-specific lethal) complex increases transcription on the single X chromosome of Drosophila males in order to equalize expression of X-linked genes between males (XY) and females (XX). The increase in transcript levels correlates with MSL- dependent acetylation of histone H4 at K16 within the bodies of active genes, but identification of the transcriptional step affected has not been possible. more...

Organism:

Drosophila melanogaster

Type:

Expression profiling by high throughput sequencing

Platform:

GPL9061

3 Samples

Download data: TXT

(Submitter supplied) Chromosomal and segmental aneuploidies are usually lethal or common features of cancer cells and variety of disease, but little is known about how copy number relates to gene expression. Drosophila males have a single X chromosome and two sets of autosomes, but X chromosome and autosome transcripts are equally abundant. This 2-fold increase in X chromosome gene expression requires a dosage compensation complex (MSL) that acetylates histone 4 at lysine 16 (H4AcK16). more...

Organism:

Drosophila melanogaster

Type:

Genome variation profiling by high throughput sequencing; Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by array; Expression profiling by array

Platforms:

GPL9058 GPL8593 GPL20

38 Samples

Download data: FTR, GPR, TXT

(Submitter supplied) In order to understand the effect of genetic background on the response to gene dose perturbation, we performed mRNA transcriptional profiling on 99 hemizygotic lines (Df/+) from the DrosDel project, which have hybrid genetic background of OregonR/w1118.

Organism:

Drosophila melanogaster

Type:

Expression profiling by high throughput sequencing

Platform:

GPL13304

417 Samples

Download data: TXT

(Submitter supplied) We performed mRNA transcriptional profiling on 99 hemizygotic lines (Df/+) from the DrosDel project covering 68% of chromosome 2L, in order to understand how changes in gene copy number affect overall transcriptome.

Organism:

Drosophila melanogaster

Type:

Expression profiling by high throughput sequencing

Platform:

GPL13304

396 Samples

Download data: TXT

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

Organism:

Drosophila miranda; Drosophila melanogaster

Type:

Genome binding/occupancy profiling by high throughput sequencing; Genome binding/occupancy profiling by array

Platforms:

GPL22022 GPL17275 GPL22023

10 Samples

Download data: BROADPEAK, TXT

(Submitter supplied) To investigate the DNA binding specificity of the CLAMP protein, we have designed a custom PBM to interrogate the binding of CLAMP to DNA sequences extracted from the Drosophila melanogaster genome. Specific regions were extracted based on ChIP-seq data, motif occurence and proximity to gene transcription start sites.

Organism:

Drosophila melanogaster

Type:

Genome binding/occupancy profiling by array

Platform:

GPL22023

2 Samples

Download data: TXT

(Submitter supplied) ChIP-seq was performed to compare binding the genome-wide binding profile of the CLAMP transcription factor in two different Drosophila species.

Organism:

Drosophila miranda; Drosophila melanogaster

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platforms:

GPL22022 GPL17275

8 Samples

Download data: BROADPEAK

(Submitter supplied) To understand transcriptomic dynamics of PGC (primordial germ cells; pole cell) of fruit fly, we used fluorescence-activated cell sorting (FACS) to isolate PGC from the embryos carrying the transgene, EGFP-vasa, which expresses GFP specifically and continuously in the germline throughout the life cycle. The PGCs collected at 11 time points during the embryogenesis were subjected to microarray analyses.

Organism:

Drosophila melanogaster

Type:

Expression profiling by array

Platform:

GPL4336

44 Samples

Download data: TXT

(Submitter supplied) Investigatation into how genes with sex-differential expression profiles are distributed among the chromosomes in Drosophila. Assayed the expression of 14,142 predicted transcripts in competitive hybridizations and found a dramatic underrepresentation of X-chromosome genes showing high relative expression in male. This is the first report of sex-biased expression of the full (predicted) genome. Findings indicate that there is significant sex-biased expression, especially in gonads. more...

Organism:

Drosophila melanogaster

Type:

Expression profiling by array

Platform:

GPL20

46 Samples

Download data

(Submitter supplied) The prominent role of pericentromeric Mbp block of 1.688 satellites in hybrid incompatibility, facilitating role of distributed X-linked 1.688 satellites in dosage compensation in males and being as a necessary element for POF recruitment to chromosome X in females led us to further investigate the role of 1.688 satellites and POF in chromosome-wide gene regulation by comparing RNA-seq data from the relevant mutants in comparison to wildtype.

Organism:

Drosophila melanogaster

Type:

Expression profiling by high throughput sequencing

Platform:

GPL17275

32 Samples

Download data: TXT