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Status
Public on May 15, 2006
Title
4 day seedling treated with red light (680nm, 8 µmol m-2 s-1) for 1 hr rep1_phyA mutant
Sample type
RNA
Source name
whole seedling (root,hypocotyl,cotyledon)
Organism
Arabidopsis thaliana Characteristics
phyA mutant
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
Approximately 10 µg of total RNA was processed to produce biotinylated cRNA targets.
Hybridization protocol
standard Affymetrix procedures
Scan protocol
standard Affymetrix procedures
Description
phyA mutant seedlings
Data processing
Affymetrix Microarray Suite version 5.0
Submission date
Dec 12, 2005
Last update date
Dec 12, 2005
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)
GSE3811 Expression during deetioaltion under Rc in wt and phy mutant seedlings
Data table header descriptions ID_REF VALUE MAS5-calculated Signal intensity
ABS_CALL the call in an absolute analysis that indicates if the transcript was present (P), absent (A), marginal (M), or no call (NC)
DETECTION P-VALUE 'detection p-value', p-value that indicates the significance level of the detection call
Data table ID_REF VALUE ABS_CALL DETECTION P-VALUE 267625_at
145.8
P
0.005859
267626_at
86.2
P
0.046143
267627_at
295
P
0.00293
267628_at
341.3
P
0.000244
267629_at
108.6
A
0.111572
267630_at
215
P
0.037598
267631_at
132.4
A
0.129639
267632_at
139.5
P
0.037598
267633_at
6.3
A
0.850342
267634_at
7.4
A
0.5
267635_at
467.9
P
0.00415
267636_at
76.2
A
0.129639
267637_at
492.9
P
0.000732
267638_at
3818.3
P
0.000244
267639_at
8.5
A
0.753906
267640_at
719
P
0.000244
267641_at
43
A
0.334473
267642_at
898.2
P
0.000244
267643_at
6.4
A
0.80542
267644_s_at
53.8
P
0.01416
22810 588 Kbytes .Supplementary data files not provided
