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Status
Public on Oct 01, 2005
Title
ice1_no treatment_Rep2
Sample type
RNA
Source name
Seedlings
Organism
Arabidopsis thaliana Characteristics
A mutant defective in an upstream transcription factor required for chilling and freezing tolerance as described in Chinnusamy, V., Ohta, M., Kanrar, S., Lee, B.H., Hong, X.H., Agarwal, M., and Zhu, J.K. (2003). ICE1: a regulator of cold-induced transcriptome and freezing tolerance in Arabidopsis. Genes Dev. 17, 1043-1054.
Growth protocol
The wild-type and ice1 mutant seeds were plated on MS agar plates supplemented with 3% sucrose. Seedlings were grown at 22C with 16-h light and 8-h dark cycles for 2 weeks before being treated.
Extracted molecule
total RNA
Extraction protocol
RNeasy Plant Mini Kit, Qiagen
Label
Biotin
Label protocol
Followed users manual: http://www.affymetrix.com/support/downloads/manuals/expression_s21_manual.pdf
Hybridization protocol
Followed users manual: http://www.affymetrix.com/support/downloads/manuals/expression_s21_manual.pdf
Scan protocol
Followed users manual: http://www.affymetrix.com/support/downloads/manuals/expression_s21_manual.pdf
Description
Target value (TGT value) was set to 500 global scaling.
Data processing
Microarray data were extracted from scanned GeneChip images and analyzed by use of Microarray Suite version 5.0.1
Submission date
Sep 18, 2005
Last update date
Aug 28, 2018
Contact name
Jian-Kang Zhu
E-mail(s)
[email protected] Phone
951-827-7117
Fax
951-827-7115
URL
http://www.faculty.ucr.edu/~jkzhu Organization name
University of California
Department
Botany and Plant Sciences
Street address
2150 Batchelor Hall
City
Riverside
State/province
CA
ZIP/Postal code
92521
Country
USA
Platform ID
GPL198 Series (1)
GSE3326 ICE1 regulation of the Arabidopsis Cold-Responsive Transcriptome
Relations Reanalyzed by
GSE118579 Reanalyzed by
GSE119083
Data table header descriptions ID_REF VALUE ABS_CALL Presence or Absence
DETECTION P-VALUE
Data table ID_REF VALUE ABS_CALL DETECTION P-VALUE AFFX-BioB-5_at
201
P
0.000509
AFFX-BioB-M_at
296.5
P
0.000044
AFFX-BioB-3_at
235.3
P
0.00011
AFFX-BioC-5_at
952.7
P
0.00011
AFFX-BioC-3_at
505.6
P
0.00006
AFFX-BioDn-5_at
1241.9
P
0.000044
AFFX-BioDn-3_at
4068.2
P
0.000044
AFFX-CreX-5_at
8558.5
P
0.000044
AFFX-CreX-3_at
11832.5
P
0.000044
AFFX-DapX-5_at
12.2
A
0.275146
AFFX-DapX-M_at
15.5
A
0.659339
AFFX-DapX-3_at
7.8
A
0.883887
AFFX-LysX-5_at
8
A
0.58862
AFFX-LysX-M_at
3.1
A
0.804734
AFFX-LysX-3_at
11.7
A
0.41138
AFFX-PheX-5_at
1.5
A
0.973889
AFFX-PheX-M_at
3
A
0.876428
AFFX-PheX-3_at
10.5
A
0.686277
AFFX-ThrX-5_at
2.3
A
0.941556
AFFX-ThrX-M_at
13.9
A
0.455409
22810 589 Kbytes .Supplementary file Size Download File type/resource GSM74903.CEL.gz
3.3 Mb
(ftp) (http) CEL
GSM74903.EXP.gz
473 b
(ftp) (http) EXP
