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Status
Public on Dec 31, 2005
Title
VFB wild type replicate 1
Sample type
RNA
Source name
10 day old seedlings
Organism
Arabidopsis thaliana Characteristics
wild type, 10 day old seedlings, light grown
Extracted molecule
total RNA
Extraction protocol
Approximately 80 mg from 10 day old light grown Col-0 wild type seedlings were collected and ground to a fine powder under liquid Nitrogen. Samples were lysed in separate groups in RLT buffer (Qiagen).Total RNA was extracted from the tissue lysate using an RNeasy kit (Qiagen).
Label
biotin
Label protocol
Approximately 6 µg of total RNA was processed to produce biotinylated cRNA targets.
Hybridization protocol
standard Affymetrix procedures
Scan protocol
standard Affymetrix procedures
Description
VFB wild type 10 day old seedlings
Data processing
Affymetrix Microarray Suite version 5.0
Submission date
Dec 15, 2005
Last update date
Dec 19, 2005
Contact name
Claus Schwechheimer
E-mail(s)
[email protected] Organization name
TUM
Department
Plant Systems Biology
Street address
Emil-Ramann-Str. 4
City
Freising
ZIP/Postal code
85354
Country
Germany
Platform ID
GPL198 Series (1)
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 P (P), A (A), M (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 AFFX-BioB-5_at
343.8
P
0.00013
AFFX-BioB-M_at
574
P
0.00004
AFFX-BioB-3_at
325.2
P
0.00004
AFFX-BioC-5_at
1375.4
P
0.00004
AFFX-BioC-3_at
987.5
P
0.00004
AFFX-BioDn-5_at
2684
P
0.00004
AFFX-BioDn-3_at
4153.5
P
0.00004
AFFX-CreX-5_at
12260.7
P
0.00004
AFFX-CreX-3_at
16217.7
P
0.00004
AFFX-DapX-5_at
505.1
P
0.00005
AFFX-DapX-M_at
858.7
P
0.00006
AFFX-DapX-3_at
1530.7
P
0.00004
AFFX-LysX-5_at
62.7
P
0.00086
AFFX-LysX-M_at
79.9
P
0.01518
AFFX-LysX-3_at
296.1
P
0.00011
AFFX-PheX-5_at
119.9
P
0.0011
AFFX-PheX-M_at
114.2
P
0.00125
AFFX-PheX-3_at
228.3
P
0.00006
AFFX-ThrX-5_at
187.6
P
0.00007
AFFX-ThrX-M_at
281.4
P
0.00009
22810 568 Kbytes .Supplementary data files not provided
