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Experiment: Measurement of pre-existing and newly transcribed mRNA at two ambient temperatures
Experiment Description
NASCArrays Experiment Reference Number: NASCARRAYS-670
In Arabidopsis thaliana a number of genes show altered transcript abundances at different ambient temperatures. As with other biochemical reactions, mRNA transcription and decay rates might be expected to increase passively with increasing temperature but it is not clear to what degree active temperature responses play a role in temperature-regulated genome-wide gene expression changes.Using a non-perturbing base analogue (4-thiouridine) labelling and separation method we have measured the relative abundances of both labelled, newly transcribed transcripts and unlabelled, pre-existing transcripts. Together with unseparated samples and samples taken at the start of the labelling time, these arrays have been used to calculate transcription and decay rates of the Arabidopsis thaliana transcriptome at two ambient temperatures.
About the ExperimenterName: | Dr Kate Sidaway-Lee |
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Head of Lab Name: | Dr Steven Penfield |
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Lab:
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Address: | Geoffrey Pope Building University of Exeter Stocker Road Exeter Devon
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Postcode:
| EX4 4QD |
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Country:
| UK |
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All of the data available in this website/database is free, and you
are free to do whatever you please with it. If you intend to publish
work based on any of this data, please acknowledge us, contact the
experimenter above, and either acknowledge them or use them as
co-authors in the work.
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| About this ExperimentExperiment Type:
| growth_condition_design; |
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Number of Slides: | 24 |
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| Experimental Parameters:
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parameter | Newly transcribed |
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parameter | Pre-existing |
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parameter | Total |
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Quality Control Measures Taken:
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References:
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| Other Information:
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Slides in this Experiment
Hybridisation Set: Sidaway-Lee: Measurement of pre-existing and newly transcribed mRNA at two ambient temperatures
Slide: Sidaway-Lee_670-17_0_Rep1_ATH1 | | |
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Tissue:
| whole plant |
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Additional Organism Information:
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Sample Description | |
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Other Information:
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ecotype_habitat | |
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Timecourse start procedure | The timecourse began 20 minutes after the lights came on |
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Protocols for BioSource 1 |
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Slide: Sidaway-Lee_670-17_0_Rep2_ATH1 | | |
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Tissue:
| whole plant |
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Additional Organism Information:
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Sample Description | |
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Other Information:
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ecotype_habitat | |
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Timecourse start procedure | The timecourse began 20 minutes after the lights came on |
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Protocols for BioSource 1 |
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Slide: Sidaway-Lee_670-17_0_Rep3_ATH1 | | |
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Tissue:
| whole plant |
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Additional Organism Information:
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Sample Description | |
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Other Information:
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ecotype_habitat | |
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Timecourse start procedure | The timecourse began 20 minutes after the lights came on |
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Protocols for BioSource 1 |
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Slide: Sidaway-Lee_670-17_2T_Rep1_ATH1 | | |
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Tissue:
| whole plant |
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in vivo Treatment:
| The plants were removed from the plates and put into liquid MS medium the day before harvest. At the start of the timecourse, 4- thiouridine was added to the plants. |
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Additional Organism Information:
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Sample Description | |
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Other Information:
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ecotype_habitat | |
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Timecourse start procedure | The timecourse began 20 minutes after the lights came on |
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|
Protocols for BioSource 1 |
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Slide: Sidaway-Lee_670-17_2T_Rep2_ATH1 | | |
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Tissue:
| whole plant |
---|
in vivo Treatment:
| The plants were removed from the plates and put into liquid MS medium the day before harvest. At the start of the timecourse, 4- thiouridine was added to the plants. |
---|
Additional Organism Information:
| |
---|
Sample Description | |
---|
Other Information:
| |
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ecotype_habitat | |
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Timecourse start procedure | The timecourse began 20 minutes after the lights came on |
---|
|
Protocols for BioSource 1 |
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|
Slide: Sidaway-Lee_670-17_2T_Rep3_ATH1 | | |
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|
Tissue:
| whole plant |
---|
in vivo Treatment:
| The plants were removed from the plates and put into liquid MS medium the day before harvest. At the start of the timecourse, 4- thiouridine was added to the plants. |
---|
Additional Organism Information:
| |
---|
Sample Description | |
---|
Other Information:
| |
---|
ecotype_habitat | |
---|
Timecourse start procedure | The timecourse began 20 minutes after the lights came on |
---|
|
Protocols for BioSource 1 |
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|
Slide: Sidaway-Lee_670-17_2N_Rep1_ATH1 | | |
|
|
|
Tissue:
| whole plant |
---|
in vivo Treatment:
| The plants were removed from the plates and put into liquid MS medium the day before harvest. At the start of the timecourse, 4- thiouridine was added to the plants. |
---|
Additional Organism Information:
| |
---|
Sample Description | |
---|
Other Information:
| |
---|
ecotype_habitat | |
---|
Timecourse start procedure | The timecourse began 20 minutes after the lights came on |
---|
|
Protocols for BioSource 1 |
|
|
|
Slide: Sidaway-Lee_670-17_2N_Rep2_ATH1 | | |
|
|
|
Tissue:
| whole plant |
---|
in vivo Treatment:
| The plants were removed from the plates and put into liquid MS medium the day before harvest. At the start of the timecourse, 4- thiouridine was added to the plants. |
---|
Additional Organism Information:
| |
---|
Sample Description | |
---|
Other Information:
| |
---|
ecotype_habitat | |
---|
Timecourse start procedure | The timecourse began 20 minutes after the lights came on |
---|
|
Protocols for BioSource 1 |
|
|
|
Slide: Sidaway-Lee_670-17_2N_Rep3_ATH1 | | |
|
|
|
Tissue:
| whole plant |
---|
in vivo Treatment:
| The plants were removed from the plates and put into liquid MS medium the day before harvest. At the start of the timecourse, 4- thiouridine was added to the plants. |
---|
Additional Organism Information:
| |
---|
Sample Description | |
---|
Other Information:
| |
---|
ecotype_habitat | |
---|
Timecourse start procedure | The timecourse began 20 minutes after the lights came on |
---|
|
Protocols for BioSource 1 |
|
|
|
Slide: Sidaway-Lee_670-17_2P_Rep1_ATH1 | | |
|
|
|
Tissue:
| whole plant |
---|
in vivo Treatment:
| The plants were removed from the plates and put into liquid MS medium the day before harvest. At the start of the timecourse, 4- thiouridine was added to the plants. |
---|
Additional Organism Information:
| |
---|
Sample Description | |
---|
Other Information:
| |
---|
ecotype_habitat | |
---|
Timecourse start procedure | The timecourse began 20 minutes after the lights came on |
---|
|
Protocols for BioSource 1 |
|
|
|
Slide: Sidaway-Lee_670-17_2P_Rep2_ATH1 | | |
|
|
|
Tissue:
| whole plant |
---|
in vivo Treatment:
| The plants were removed from the plates and put into liquid MS medium the day before harvest. At the start of the timecourse, 4- thiouridine was added to the plants. |
---|
Additional Organism Information:
| |
---|
Sample Description | |
---|
Other Information:
| |
---|
ecotype_habitat | |
---|
Timecourse start procedure | The timecourse began 20 minutes after the lights came on |
---|
|
Protocols for BioSource 1 |
|
|
|
Slide: Sidaway-Lee_670-17_2P_Rep3_ATH1 | | |
|
|
|
Tissue:
| whole plant |
---|
in vivo Treatment:
| The plants were removed from the plates and put into liquid MS medium the day before harvest. At the start of the timecourse, 4- thiouridine was added to the plants. |
---|
Additional Organism Information:
| |
---|
Sample Description | |
---|
Other Information:
| |
---|
ecotype_habitat | |
---|
Timecourse start procedure | The timecourse began 20 minutes after the lights came on |
---|
|
Protocols for BioSource 1 |
|
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Slide: Sidaway-Lee_670-27_0_Rep1_ATH1 | | |
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|
Tissue:
| whole plant |
---|
Additional Organism Information:
| |
---|
Sample Description | |
---|
Other Information:
| |
---|
ecotype_habitat | |
---|
Timecourse start procedure | The timecourse began 20 minutes after the lights came on |
---|
|
Protocols for BioSource 1 |
|
|
|
Slide: Sidaway-Lee_670-27_0_Rep2_ATH1 | | |
|
|
|
Tissue:
| whole plant |
---|
Additional Organism Information:
| |
---|
Sample Description | |
---|
Other Information:
| |
---|
ecotype_habitat | |
---|
Timecourse start procedure | The timecourse began 20 minutes after the lights came on |
---|
|
Protocols for BioSource 1 |
|
|
|
Slide: Sidaway-Lee_670-27_0_Rep3_ATH1 | | |
|
|
|
Tissue:
| whole plant |
---|
Additional Organism Information:
| |
---|
Sample Description | |
---|
Other Information:
| |
---|
ecotype_habitat | |
---|
Timecourse start procedure | The timecourse began 20 minutes after the lights came on |
---|
|
Protocols for BioSource 1 |
|
|
|
Slide: Sidaway-Lee_670-27_1T_Rep1_ATH1 | | |
|
|
|
Tissue:
| whole plant |
---|
in vivo Treatment:
| The plants were removed from the plates and put into liquid MS medium the day before harvest. At the start of the timecourse, 4- thiouridine was added to the plants. |
---|
Additional Organism Information:
| |
---|
Sample Description | |
---|
Other Information:
| |
---|
ecotype_habitat | |
---|
Timecourse start procedure | The timecourse began 20 minutes after the lights came on |
---|
|
Protocols for BioSource 1 |
|
|
|
Slide: Sidaway-Lee_670-27_1T_Rep2_ATH1 | | |
|
|
|
Tissue:
| whole plant |
---|
in vivo Treatment:
| The plants were removed from the plates and put into liquid MS medium the day before harvest. At the start of the timecourse, 4- thiouridine was added to the plants. |
---|
Additional Organism Information:
| |
---|
Sample Description | |
---|
Other Information:
| |
---|
ecotype_habitat | |
---|
Timecourse start procedure | The timecourse began 20 minutes after the lights came on |
---|
|
Protocols for BioSource 1 |
|
|
|
Slide: Sidaway-Lee_670-27_1T_Rep3_ATH1 | | |
|
|
|
Tissue:
| whole plant |
---|
in vivo Treatment:
| The plants were removed from the plates and put into liquid MS medium the day before harvest. At the start of the timecourse, 4- thiouridine was added to the plants. |
---|
Additional Organism Information:
| |
---|
Sample Description | |
---|
Other Information:
| |
---|
ecotype_habitat | |
---|
Timecourse start procedure | The timecourse began 20 minutes after the lights came on |
---|
|
Protocols for BioSource 1 |
|
|
|
Slide: Sidaway-Lee_670-27_1N_Rep1_ATH1 | | |
|
|
|
Tissue:
| whole plant |
---|
in vivo Treatment:
| The plants were removed from the plates and put into liquid MS medium the day before harvest. At the start of the timecourse, 4- thiouridine was added to the plants. |
---|
Additional Organism Information:
| |
---|
Sample Description | |
---|
Other Information:
| |
---|
ecotype_habitat | |
---|
Timecourse start procedure | The timecourse began 20 minutes after the lights came on |
---|
|
Protocols for BioSource 1 |
|
|
|
Slide: Sidaway-Lee_670-27_1N_Rep2_ATH1 | | |
|
|
|
Tissue:
| whole plant |
---|
in vivo Treatment:
| The plants were removed from the plates and put into liquid MS medium the day before harvest. At the start of the timecourse, 4- thiouridine was added to the plants. |
---|
Additional Organism Information:
| |
---|
Sample Description | |
---|
Other Information:
| |
---|
ecotype_habitat | |
---|
Timecourse start procedure | The timecourse began 20 minutes after the lights came on |
---|
|
Protocols for BioSource 1 |
|
|
|
Slide: Sidaway-Lee_670-27_1N_Rep3_ATH1 | | |
|
|
|
Tissue:
| whole plant |
---|
in vivo Treatment:
| The plants were removed from the plates and put into liquid MS medium the day before harvest. At the start of the timecourse, 4- thiouridine was added to the plants. |
---|
Additional Organism Information:
| |
---|
Sample Description | |
---|
Other Information:
| |
---|
ecotype_habitat | |
---|
Timecourse start procedure | The timecourse began 20 minutes after the lights came on |
---|
|
Protocols for BioSource 1 |
|
|
|
Slide: Sidaway-Lee_670-27_1P_Rep1_ATH1 | | |
|
|
|
Tissue:
| whole plant |
---|
in vivo Treatment:
| The plants were removed from the plates and put into liquid MS medium the day before harvest. At the start of the timecourse, 4- thiouridine was added to the plants. |
---|
Additional Organism Information:
| |
---|
Sample Description | |
---|
Other Information:
| |
---|
ecotype_habitat | |
---|
Timecourse start procedure | The timecourse began 20 minutes after the lights came on |
---|
|
Protocols for BioSource 1 |
|
|
|
Slide: Sidaway-Lee_670-27_1P_Rep2_ATH1 | | |
|
|
|
Tissue:
| whole plant |
---|
in vivo Treatment:
| The plants were removed from the plates and put into liquid MS medium the day before harvest. At the start of the timecourse, 4- thiouridine was added to the plants. |
---|
Additional Organism Information:
| |
---|
Sample Description | |
---|
Other Information:
| |
---|
ecotype_habitat | |
---|
Timecourse start procedure | The timecourse began 20 minutes after the lights came on |
---|
|
Protocols for BioSource 1 |
|
|
|
Slide: Sidaway-Lee_670-27_1P_Rep3_ATH1 | | |
|
|
|
Tissue:
| whole plant |
---|
in vivo Treatment:
| The plants were removed from the plates and put into liquid MS medium the day before harvest. At the start of the timecourse, 4- thiouridine was added to the plants. |
---|
Additional Organism Information:
| |
---|
Sample Description | |
---|
Other Information:
| |
---|
ecotype_habitat | |
---|
Timecourse start procedure | The timecourse began 20 minutes after the lights came on |
---|
|
Protocols for BioSource 1 |
|
|
|
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