GEO DataSets

(Submitter supplied) This study measured the differential expression of genes from a single clonal Daphnia pulex isolate obtained from an eutrophic flooded opencast mine near Gräfenhain (Saxony, Germany) and has been kept in the laboratory since 2002. The daphniids (50 adult animals per batch) were raised in 3-L glass beakers under a 16 h:8 h L:D photoperiod. Three-quarter of the culture medium (M4) was renewed once a week, and the animals were equally fed ad libitum with algae (Desmodesmus subspicatus; SAG 53.80, Göttingen, Germany). more...

Organism:

Daphnia pulex

Type:

Expression profiling by array

Platform:

GPL11278

12 Samples

Download data: PAIR, TXT

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

Organism:

Daphnia pulex

Type:

Expression profiling by array

Platform:

GPL11278

24 Samples

Download data: PAIR, TXT

(Submitter supplied) This study measured the differential expression of genes from a single clonal Daphnia pulex isolate obtained from an eutrophic flooded opencast mine near Gräfenhain (Saxony, Germany) and has been kept in the laboratory since 2002. The daphniids (50 adult animals per batch) were raised in 3-L glass beakers under a 16 h:8 h L:D photoperiod. Three-quarter of the culture medium (M4) was renewed once a week, and the animals were equally fed ad libitum with algae (Desmodesmus subspicatus; SAG 53.80, Göttingen, Germany). more...

Organism:

Daphnia pulex

Type:

Expression profiling by array

Platform:

GPL11278

12 Samples

Download data: PAIR, TXT

(Submitter supplied) We analyzed genome-wide temporal transcriptional patterns from Daphnia pulex collected over a 48 hr time period using a cosine-fitting algorithm. Additionally, using a comprehensive network modeling and analysis approach, we go beyond the standard statistical analyses of the gene expression data. By doing so, we identified novel co-regulated rhythmic genes that have similar network topological as well as functional annotations as rhythmic genes identified by the statistical analyses but that cannot be identified by cosine-fitting alone. more...

Organism:

Daphnia pulex

Type:

Expression profiling by array

Platform:

GPL20021

24 Samples

Download data: PAIR, TXT

(Submitter supplied) "Gene response profiles for Daphnia pulex exposed to the environmental stressor cadmium reveals novel crustacean metallothioneins." Joseph.R.Shaw, John.K.Colbourne, Jennifer.C.Davey, Stephen.P.Glaholt, Thomas.H.Hampton, Celia.Y.Chen, Carol.L.Folt, Joshua.W.Hamilton (BMC Genomics 2007). Genomic research tools such as microarrays are proving to be important resources to study the complex regulation of genes that respond to environmental perturbations. more...

Organism:

Daphnia pulex

Type:

Expression profiling by array

Platform:

GPL6195

3 Samples

Download data: GPR, TXT

(Submitter supplied) 7 daphnia magna life stages from embryo development till adult were profiled using a new custom made microarray on a 4*160K platform

Organism:

Daphnia magna

Type:

Expression profiling by array

Platform:

GPL22721

20 Samples

Download data: TXT

(Submitter supplied) Although cyanobacteria produce a wide range of natural toxins that impact aquatic organisms, food webs and water quality, the mechanisms of toxicity are still insufficiently understood. Here, we implemented a whole-genome expression microarray to identify pathways, gene networks and paralogous gene families responsive to Microcystis stress in Daphnia pulex. Therefore, neonates of a sensitive isolate were given a diet contaminated with Microcystis to contrast with those given a control diet for sixteen days. more...

Organism:

Daphnia pulex

Type:

Expression profiling by array

Platform:

GPL11278

4 Samples

Download data: TXT

(Submitter supplied) We report the application of CAGE (Cap Analysis of Gene Expression) on collections of Daphnia pulex individuals representing three major developmental states. This submission comes from a project of Michael Lynch and was funded by a grant from the National Institutes of Health entitled 'Population Genomics of Daphnia pulex' (Project Number: 1R01GM101672-01A1).

Organism:

Daphnia pulex

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19087

8 Samples

Download data: TXT

(Submitter supplied) Experiments conducted on this tiling array are used to (1) validate the frozen gene sets of the current genome annotation, (2) improve the predicted gene structures by empirically determining UTRs and intron-exon boundaries, identifying missing upstream, internal, and downstream exons and alternative transcripts, (3) propose gene structure models in transcribed regions containing no predicted genes and (4) delineate transcriptionally active regions of the genome from intergenic, intronic and genic regions. more...

Organism:

Daphnia pulex

Type:

Expression profiling by genome tiling array

Platforms:

GPL11200 GPL11201

6 Samples

Download data: PAIR

(Submitter supplied) Experiments conducted on this tiling array are used to (1) validate the frozen gene sets of the current genome annotation, (2) improve the predicted gene structures by empirically determining UTRs and intron-exon boundaries, identifying missing upstream, internal, and downstream exons and alternative transcripts, (3) propose gene structure models in transcribed regions containing no predicted genes and (4) delineate transcriptionally active regions of the genome from intergenic, intronic and genic regions. more...

Organism:

Daphnia pulex

Type:

Expression profiling by genome tiling array

Platforms:

GPL11201 GPL11200

6 Samples

Download data: PAIR

(Submitter supplied) Experiments conducted on this tiling array are used to (1) validate the frozen gene sets of the current genome annotation, (2) improve the predicted gene structures by empirically determining UTRs and intron-exon boundaries, identifying missing upstream, internal, and downstream exons and alternative transcripts, (3) propose gene structure models in transcribed regions containing no predicted genes and (4) delineate transcriptionally active regions of the genome from intergenic, intronic and genic regions. more...

Organism:

Daphnia pulex

Type:

Expression profiling by genome tiling array

Platforms:

GPL11200 GPL11201

6 Samples

Download data: PAIR

(Submitter supplied) This study measured the rates at which duplicated genes in the Daphnia pulex genome diverge in function, based on significant differences in their gene expression when paralogs of various ages were tested across 8 to 12 contrasting conditions. The conditions were designated A to L. The number and diversity of experiments were designed to uncover condition specific expression. The age of duplicated genes was measured as the level of silent-site nucleotide substitution (Ks) between paralogs. more...

Organism:

Daphnia pulex

Type:

Expression profiling by array

Platform:

GPL11278

8 Samples

Download data: PAIR

(Submitter supplied) This study measured the rates at which duplicated genes in the Daphnia pulex genome diverge in function, based on significant differences in their gene expression when paralogs of various ages were tested across 8 to 12 contrasting conditions. The conditions were designated A to L. The number and diversity of experiments were designed to uncover condition specific expression. The age of duplicated genes was measured as the level of silent-site nucleotide substitution (Ks) between paralogs. more...

Organism:

Daphnia pulex

Type:

Expression profiling by array

Platform:

GPL11278

6 Samples

Download data: PAIR

(Submitter supplied) This study measured the rates at which duplicated genes in the Daphnia pulex genome diverge in function, based on significant differences in their gene expression when paralogs of various ages were tested across 8 to 12 contrasting conditions. The conditions were designated A to L. The number and diversity of experiments were designed to uncover condition specific expression. The age of duplicated genes was measured as the level of silent-site nucleotide substitution (Ks) between paralogs. more...

Organism:

Daphnia pulex

Type:

Expression profiling by array

Platform:

GPL11278

32 Samples

Download data: PAIR

(Submitter supplied) This study measured the rates at which duplicated genes in the Daphnia pulex genome diverge in function, based on significant differences in their gene expression when paralogs of various ages were tested across 8 to 12 contrasting conditions. The conditions were designated A to L. The number and diversity of experiments were designed to uncover condition specific expression. The age of duplicated genes was measured as the level of silent-site nucleotide substitution (Ks) between paralogs. more...

Organism:

Daphnia pulex

Type:

Expression profiling by array

Platform:

GPL11278

48 Samples

Download data: PAIR

(Submitter supplied) This study measured the rates at which duplicated genes in the Daphnia pulex genome diverge in function, based on significant differences in their gene expression when paralogs of various ages were tested across 8 to 12 contrasting conditions. The conditions were designated A to L. The number and diversity of experiments were designed to uncover condition-specific expression. The age of duplicated genes was measured as the level of silent-site nucleotide substitution (Ks) between paralogs. more...

Organism:

Daphnia pulex

Type:

Expression profiling by array

Platform:

GPL11278

4 Samples

Download data: PAIR

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

Organism:

Daphnia pulex

Type:

Expression profiling by array; Expression profiling by genome tiling array

Platforms:

GPL11200 GPL11278 GPL11201

84 Samples

Download data: PAIR

(Submitter supplied) Determine gene expression in daphnia exposed to biotic and abiotic stressors. Identify in Daphnia pulex unique gene regulatory patterns involved in the regulation of limited phosphorous.

Organism:

Daphnia pulex

Type:

Expression profiling by array

Platform:

GPL13280

4 Samples

Download data: GPR

(Submitter supplied) Whole-chromatin profile (FAIRE-seq) in three Drosophila species (D. melanogaster, D. pseudoobscura and D. virilis) in eye-antennal imaginal discs at the stage of third instar wandering larvae.

Organism:

Drosophila melanogaster; Drosophila pseudoobscura; Drosophila virilis

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platforms:

GPL13313 GPL13304 GPL13310

4 Samples

Download data: BW, TXT

(Submitter supplied) In this study we use nimblegen high-density arrays to examine gene expression regulation in a common-garden experiment varying thermal environments. We report genome-wide patterns of gene expression in two heat tolerant southern and two heat-sensitive northern clones of Daphnia pulex exposed to either optimal (18°C) or substressful (28°C) temperatures.

Organism:

Daphnia pulex

Type:

Expression profiling by array

Platform:

GPL11278

36 Samples

Download data: PAIR, TXT