|
| Status |
Public on Nov 01, 2009 |
| Title |
2d red light grown pif1pif3pif4pif5 (pifq) mutant/replicate 1 |
| Sample type |
RNA |
| |
|
| Source name |
whole seedling (root, hypocotyl,cotyledon)
|
| Organism |
Arabidopsis thaliana |
| Characteristics |
genotype: pif1pif3pif4pif5 (pifq) mutant
|
| Treatment protocol |
2d red light grown (6.7 μmol/m2/s)
|
| Growth protocol |
Wild-type and pifq mutant seeds were plated in GM medium without sucrose at room temperature as described. During this procedure the seeds were routinely exposed to WL for a total of 1.5 hours after imbibition. Seeds were then stratified for 5 days at 4ºC in darkness. After stratification, seeds were induced to germinate with a 5-min Rp (46 μmol/m2/s) and then incubated in the dark for 3h at 21°C before providing a terminal 5-min FRp (58 μmol/m2/s). Seeds were then placed in constant red light (Rc) (6.7 μmol/m2/s) at 21°C for 45h.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted from ~400 mg (fw) tissue using the method of Chang et al. (Chang, S., Puryear, J. & Cairney, J. (1993) Plant Mol. Biol. Rep. 11, 113-116) followed by further purification using Qiagen RNeasy columns.
|
| Label |
biotin
|
| Label protocol |
standard Affymetrix procedures
|
| |
|
| Hybridization protocol |
standard Affymetrix procedures
|
| Scan protocol |
standard Affymetrix procedures
|
| Description |
2d red light grown (6.7 μmol/m2/s) pifq mutant/replicate 1
|
| Data processing |
BioConductor software (RMA) to normalize and correct background on all the data
|
| |
|
| Submission date |
Jul 15, 2009 |
| Last update date |
Aug 15, 2018 |
| Contact name |
james m tepperman |
| E-mail(s) |
[email protected]
|
| Phone |
510-559-5935
|
| Organization name |
Plant Gene Expression Center/UC Berkeley
|
| Department |
Plant and Microbial Biology
|
| Lab |
QUAIL
|
| Street address |
800 Buchanan St.
|
| City |
Albany |
| State/province |
CA |
| ZIP/Postal code |
94710 |
| Country |
USA |
| |
|
| Platform ID |
GPL198 |
| Series (1) |
| GSE17159 |
Gene expression in pif1pif3pif4pif5 mutant under dark or red light conditions |
|
| Relations |
| Reanalyzed by |
GSE118579 |
