|
| Status |
Public on Jan 08, 2007 |
| Title |
Circadian expression of genes: modelling the Arabidopsis circadian clock |
| Organism |
Arabidopsis thaliana |
| Experiment type |
Expression profiling by array
|
| Summary |
Our aim is to study the circadian expression of genes to aid in our attempt of modelling the Arabidopsis circadian clock. Circadian microarray data have previously been published for plants after white light (WL)-dark cycles, using the 8k chip (Harmer et al. 2000). We intend to repeat this experiment using the 26k chips and are coordinating with Dr. Harmer, who is pursuing complementary experiments in UC Davis. Plants will be transferred to continuous WL after entrainment to 12h:12h light dark cycles. RNAs will be harvested every 4 hours over two days, with the same accession and sampling intervals used previously by Harmer et al. The two days of sampling provide internal replication. Our experience shows that this is the most economical design: it is easier to identify rhythms over a two-day timecourse than in two replicates of a single day. Hence: 13 RNA samples on 13 chips in total.
METHOD: Seed was sown on MS agar plates with 3% sucrose, imbibed at 4 C for 96 hours. Seed was then entrained for 7 days at 22C, in cycles of 12 hours white light, 12 hours darkness. After 7 days they were transferred to constant white light at 22 C: this is time 0h. Tissue harvested at the time points shown after time 0.
Experimenter name = Kieron Edwards
Experimenter phone = 024 7652 8374
Experimenter fax = 024 7652 3701
Experimenter department = Department of Biological Sciences
Experimenter institute = University of Warwick
Experimenter address = Department of Biological Sciences
Experimenter address = University of Warwick
Experimenter address = Gibbet Hill Road
Experimenter address = Coventry
Experimenter zip/postal_code = CV4 7AL
Experimenter country = UK
Keywords: time_series_design, growth_condition_design
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| |
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| Overall design |
13 samples were used in this experiment
|
| |
|
| Contributor(s) |
Edwards K, Millar A, Townsend H, Emmerson Z, Schildknecht B |
| Citation missing |
Has this study been published? Please login to update or notify GEO. |
| Submission date |
Aug 25, 2006 |
| Last update date |
Aug 28, 2018 |
| Contact name |
Nottingham Arabidopsis Stock Centre (NASC) |
| E-mail(s) |
affy@arabidopsis.info
|
| Phone |
+44 (0)115 951 3237
|
| Fax |
+44 (0)115 951 3297
|
| URL |
http://arabidopsis.info/
|
| Organization name |
Nottingham Arabidopsis Stock Centre (NASC)
|
| Department |
School of Biosciences, University of Nottingham
|
| Street address |
Sutton Bonington Campus
|
| City |
Loughborough |
| ZIP/Postal code |
LE12 5RD |
| Country |
United Kingdom |
| |
|
| Platforms (1) |
| GPL198 |
[ATH1-121501] Affymetrix Arabidopsis ATH1 Genome Array |
|
| Samples (13)
|
|
| Relations |
| Affiliated with |
GSE69995 |
| BioProject |
PRJNA96903 |
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