GEO DataSets

Analysis of mutants lacking DAF-19, a transcription factor that regulates genes involved in cilia function. Cilia defects are associated with a variety of human disorders, such as cystic kidney disease. Results provide insight into the mechanisms that regulate the formation and function of cilia.

Organism:

Caenorhabditis elegans

Type:

Expression profiling by array, count, 2 genotype/variation sets

Platform:

GPL200

Series:

GSE6563

4 Samples

Download data: CEL

(Submitter supplied) By screening for genes possessing canonical X-box sequences in promoters of three Caenorhabditis species, namely C. elegans, C. briggsae and C. remanei, we identified 93 genes (including known X-box regulated genes) that encode putative components of ciliated neurons in C. elegans and are subject to the same regulatory control. For many of these genes, restricted anatomical expression in ciliated cells was confirmed, and control of transcription by the ciliogenic DAF-19 RFX transcription factor was demonstrated by comparative transcriptional profiling of daf-19(+) and daf-19(-) animals. more...

Organism:

Caenorhabditis elegans

Type:

Expression profiling by array

Dataset:

GDS2549

Platform:

GPL200

4 Samples

Download data: CEL

(Submitter supplied) Cilia are ubiquitous cell surface projections that modulate various sensory- and motility based processes and are implicated in a growing number of multi-organ genetic disorders termed ciliopathies. As new components required for cilium biogenesis and function remain unidentified, we sought to further define and validate the transcriptional targets of the ciliogenic C. elegans RFX transcription factor DAF-19. more...

Organism:

Caenorhabditis elegans

Type:

Expression profiling by array

Platform:

GPL200

12 Samples

Download data: CEL

(Submitter supplied) Cilia are required for many sensory and motility related functions and are involved in growing number of genetic disorders termed ciliopathies. DAF-19, RFX type transcription factor controls expression of many cilia structure and function related genes. To this end, transcriptional profiling of daf-19 mutants (which do not form cilia) and wild-type animals was performed using selectively staged larval stages where cilia mature and maintained, structurally as well as functionally.

Organism:

Caenorhabditis elegans

Type:

Expression profiling by array

Platform:

GPL200

14 Samples

Download data: CEL

(Submitter supplied) Three biological replicates of each treatment were generated and the expression profiles were determined using Affymetrix C. elegans arrays. Comparisons between the sample groups allow the identification of genes expression patterns. Keywords: repeat

Organism:

Caenorhabditis elegans

Type:

Expression profiling by array

Dataset:

GDS2463

Platform:

GPL200

12 Samples

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Analysis of animals overexpressing the basic helix-loop-helix (bHLH) transcription factor Twist and its heterodimeric bHLH partner E/DA. Twist is important in mesoderm development. Results provide insight into the function of Twist in mesoderm development.

Organism:

Caenorhabditis elegans

Type:

Expression profiling by array, count, 2 protocol, 2 strain sets

Platform:

GPL200

Series:

GSE2862

12 Samples

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(Submitter supplied) Exposure to cadmium is associated with a variety of human diseases. At low concentrations, cadmium activates the transcription of stress-responsive genes, which can prevent or repair the adverse effects caused by this metal. Using C. elegans, 290 genes were identified that are differentially expressed (≥1.5-fold) following a 4 or 24 hour exposure to cadmium. Several of these genes are known to be involved in metal detoxification, including mtl-1, mtl-2, cdr-1 and ttm-1, confirming the efficacy of the study. more...

Organism:

Caenorhabditis elegans

Type:

Expression profiling by array

Dataset:

GDS3420

Platform:

GPL2875

36 Samples

Download data: TIFF, TXT

Analysis of animals treated with 100 uM cadmium for 4 or 24 hours. Cadmium is a environmental toxicant. Exposure to cadmium is associated with a variety of human diseases. Results provide insight into the molecular mechanisms involved in the defense against cadmium toxicity.

Organism:

Caenorhabditis elegans

Type:

Expression profiling by array, log e ratio, 2 time sets

Platform:

GPL2875

Series:

GSE7535

36 Samples

Download data: TIFF, TXT

(Submitter supplied) We describe an in vivo chromatin purification system for genome-wide epigenetic profiling in C. elegans. In this system, we coexpressed the E. coli biotin ligase enzyme (BirA), together with the C. elegans H3.3 gene fused to BioTag, a 23-amino acid peptide serving as a biotinylation substrate for BirA, in vivo in worms. We developed methods to isolate chromatin under different salt extraction conditions, followed by affinity purification of biotinylated chromatin with streptavidin and genome-wide profiling with microarrays. more...

Organism:

Caenorhabditis elegans

Type:

Genome binding/occupancy profiling by genome tiling array

Platform:

GPL7098

18 Samples

Download data: BEDGRAPH, GFF, PAIR, TXT

(Submitter supplied) The nematode shows responses to acute ethanol exposure that are similar to those observed in humans, mice, and Drosophila, namely hyperactivity followed by uncoordination and sedation. We used in this report the nematode Caenorhabditis elegans as a model system to identify and characterize the genes that are affected by ethanol exposure and to link those genes functionally into an ethanol-induced gene network. more...

Organism:

Caenorhabditis elegans

Type:

Expression profiling by array

Platforms:

GPL2653 GPL3097 GPL2646

7 Samples

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(Submitter supplied) The phenotype is an interplay between genetic and environmental components, however the relationship between these two is difficult to predict. For any particular environment only a handful of genes show gene environment interaction [refs]. This may imply that certain constrains prevent genes to participate in gene environment interaction that possibly could be used to predict potential targets for such interaction under different sets of environmental conditions. more...

Organism:

Caenorhabditis elegans

Type:

Expression profiling by array

Platform:

GPL13394

90 Samples

Download data: TXT

(Submitter supplied) Bulk RNA seq of FACS isolated C. elegans neurons, with pan-neuronal reference, and sorted viable cell reference samples. Collected for comparison to single cell sequencing data

Organism:

Caenorhabditis elegans

Type:

Expression profiling by high throughput sequencing

Platform:

GPL18245

37 Samples

Download data: TXT

(Submitter supplied) Advances over the past decade have allowed for increasingly fine-grained labeling and isolation of rare cell samples for transcriptomic analysis, providing new insights into cell function and gene regulation. These samples often contain very little RNA for sequencing, and so have required new techniques to capture and amplify transcripts of interest. However, as new tools are developed, they are often optimized for mammalian samples. more...

Organism:

Caenorhabditis elegans

Type:

Expression profiling by high throughput sequencing

Platform:

GPL18245

8 Samples

Download data: TXT