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Sample GSM88050 Query DataSets for GSM88050
Status Public on Apr 24, 2008
Title csn4-1_mutant replicate 2
Sample type RNA
 
Source name 7 day old seedlings
Organism Arabidopsis thaliana
Characteristics mutant, 7 day old seedlings, light grown
Extracted molecule total RNA
Extraction protocol Approximately 80 mg from 7 day old light grown csn4-1 mutant 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 csn4-1 mutant 7 day old seedlings light grown
Data processing Affymetrix Microarray Suite version 5.0
 
Submission date Dec 15, 2005
Last update date Aug 28, 2018
Contact name Claus Schwechheimer
E-mail(s) claus.schwechheimer@wzw.tum.de
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 (2)
GSE3865 CSN4-1 mutant analysis
GSE9728 COP9 signalosome (csn) mutant analysis
Relations
Reanalyzed by GSE119083

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 3511.9 P 0.00004
AFFX-BioB-M_at 4420 P 0.00004
AFFX-BioB-3_at 2954.9 P 0.00004
AFFX-BioC-5_at 9970.3 P 0.00004
AFFX-BioC-3_at 7214 P 0.00004
AFFX-BioDn-5_at 20518.4 P 0.00004
AFFX-BioDn-3_at 26835.2 P 0.00004
AFFX-CreX-5_at 72242.4 P 0.00004
AFFX-CreX-3_at 101369.4 P 0.00004
AFFX-DapX-5_at 613.7 P 0.00006
AFFX-DapX-M_at 3038.4 P 0.00005
AFFX-DapX-3_at 13394.4 P 0.00004
AFFX-LysX-5_at 310.3 P 0.00066
AFFX-LysX-M_at 854.5 P 0.0002
AFFX-LysX-3_at 4292 P 0.00007
AFFX-PheX-5_at 99 A 0.26283
AFFX-PheX-M_at 450.7 P 0.00141
AFFX-PheX-3_at 3584.8 P 0.00005
AFFX-ThrX-5_at 38.4 A 0.57404
AFFX-ThrX-M_at 236.7 P 0.00086

Total number of rows: 22810

Table truncated, full table size 572 Kbytes.




Supplementary file Size Download File type/resource
GSM88050.CEL.gz 1.7 Mb (ftp)(http) CEL
Processed data included within Sample table

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