GEO DataSets

(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) 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

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) 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) 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) 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) 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) 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 use a custom microarray for the crustacean Daphnia pulex to investigate gene expression in males, juvenile females and pregnant females. Keywords: sex-biased, developmental

Organism:

Daphnia pulex

Type:

Expression profiling by array

Platform:

GPL4349

8 Samples

Download data: GPR

(Submitter supplied) Drought, salinity and sub-optimal temperatures are stresses that cause adverse effects on the growth of plants and the productivity of crops. In this study, we have analyzed the expression profiles of rice genes under control and abiotic stress conditions using microarray technology to identify the genes differentially expressed during various abiotic stresses. Keywords: Stress treatment

Organism:

Oryza sativa

Type:

Expression profiling by array

Platform:

GPL2025

12 Samples

Download data: CEL

(Submitter supplied) Plants initially undergo a period of vegetative development, in which it produces leaves from shoot apical meristem (SAM) and roots from the root apical meristem. Later in development, the SAM undergoes a change in fate and enters reproductive development called as floral transition, producing flowers and seeds. Our understanding of the molecular and genetic mechanisms that underlie reproductive development in plants has increased tremendously in the past decade, essentially through the work on Arabidopsis. more...

Organism:

Oryza sativa

Type:

Expression profiling by array

Platform:

GPL2025

45 Samples

Download data: CEL

(Submitter supplied) Despite a significant increase in genomic data, our knowledge of gene functions and their transcriptional responses to environmental stimuli remains limited. Here, we use the model keystone species Daphnia pulex to study environmental responses of genes in the context of their gene family history to better understand the relationship between genome structure and gene function in response to environmental stimuli. more...

Organism:

Daphnia pulex

Type:

Expression profiling by array

Platform:

GPL11278

40 Samples

Download data: PAIR