GEO DataSets

Analysis of plant molecular response to day/night cycling. Samples taken at 6 hour intervals throughout the day. Identification of genes that cycle with either a diurnal or a circadian pattern.

Organism:

Arabidopsis thaliana

Type:

Expression profiling by array, log ratio, 3 time sets

Platform:

GPL13

Series:

GSE4

5 Samples

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(Submitter supplied) Plants respond to day/night cycling in a number of physiological ways. At the mRNA level, the expression of some genes changes during the 24-hr period. To identify novel genes regulated in this way, we used microarrays containing 11,521 Arabidopsis expressed sequence tags, representing an estimated 7800 unique genes, to determine gene expression levels at 6-hr intervals throughout the day. Eleven percent of the genes, encompassing genes expressed at both high and low levels, showed a diurnal expression pattern. more...

Organism:

Arabidopsis thaliana

Type:

Expression profiling by array

Datasets:

GDS5 GDS135

Platform:

GPL13

13 Samples

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(Submitter supplied) Tip Configuration: Standard 1-tip Columns per Sector: 1 Rows per Sector: 1 Column Spacing: 1.1 Row Spacing: 1.1 Microarray containing 11,521 Arabidopsis expressed sequence tags, representing an estimated 7800 unique genes.

Organism:

Arabidopsis thaliana

2 DataSets

1 Series

13 Samples

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Analysis of plant molecular response to day/night cycling. Samples taken at 6 hour intervals throughout the day. Identification of genes that cycle with either a diurnal or a circadian pattern.

Organism:

Arabidopsis thaliana

Type:

Expression profiling by array, log ratio, 3 time sets

Platform:

GPL13

Series:

GSE4

5 Samples

Download data

(Submitter supplied) We report the application of single-molecule-based sequencing technology for high-throughput profiling of H3K4 demethylase LDL1 in 14 days old arabidopsis. By obtaining sequence from chromatin immunoprecipitated DNA, we generated genome-wide LDL1-binding maps of 14 days old arabidopsis. To reveal bound genes by LDL1, chimeric protein LDL1-GFP was expressed under LDL1 promoter in ldl1 (LDL1pro:LDL1:GFP/ ldl1). more...

Organism:

Arabidopsis thaliana

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL17639

3 Samples

Download data: BED

(Submitter supplied) LHY and CCA1 encode single MYB transcription factors, involved in circadian clock. However, direct target genes of LHY and CCA1 in a genomic scale were largely unknown. To reveal bound genes by CCA1, chimeric protein CCA1-FLAG was expressed under CCA1 promoter in cca1 lhy (CCA1pro:CCA1-FLAG/ cca1 lhy). ChIP was performed using anti-FLAG antibody (F3165; SIGMA), which was bound to Dynabeads Protein G (100-03D; Life Technologies), and ChIP DNA were analyzed by IonPGM or Illumina GAII.

Organism:

Arabidopsis thaliana

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platforms:

GPL9302 GPL19056

2 Samples

Download data: BED

(Submitter supplied) How do the transcript levels of leaf-expressed genes change in a normal day-night cycle? The interest is in genes that are regulated by the circadian clock and the diurnal component (i.e. light, metabolite changes). Plants were grown on soil in a 12/12 h light/dark rythm at 20°C day and night. 5 weeks after germination the rosettes of the non-flowering plants were harvested, 15 plants per sample. Plants were harvested at 6 timepoints every 4 hours beginning with the end of the night (still in darkness). more...

Organism:

Arabidopsis thaliana

Type:

Expression profiling by array

Dataset:

GDS1757

Platform:

GPL198

18 Samples

Download data: CEL

Analysis of Col-0 leaves at various time points in a normal day-night cycle. Col-0 plants grown in 12-hour light 12-hour dark rhythm at 20 degrees C. Leaves collected 4, 8, and 12 h into the light period and into the night. Results identify genes that undergo diurnal changes of expression.

Organism:

Arabidopsis thaliana

Type:

Expression profiling by array, count, 2 protocol, 6 time sets

Platform:

GPL198

Series:

GSE3416

18 Samples

Download data: CEL

(Submitter supplied) mRNA degradation provides a powerful means for controlling gene expression during growth, development, and many physiological transitions in plants and other systems. Rates of decay help define the steady state levels to which transcripts accumulate in the cytoplasm and determine the speed with which these levels change in response to the appropriate signals. When fast responses are to be achieved, rapid decay of mRNAs is necessary. more...

Organism:

Arabidopsis thaliana

Type:

Expression profiling by array

Platform:

GPL2823

6 Samples

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