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Status
Public on Dec 31, 2013
Title
IL13_matrigel_rep2
Sample type
RNA
Channel 1
Source name
IMR90, matrigel, IL13
Organism
Homo sapiens
Characteristics
cell line: IMR90 cell type: lung fibroblasts substrate: matrigel treatment: IL13 timepoint: 24h
Treatment protocol
Cells were treated for 24 hours with IL-4 (10 ng/ml), IL-13 (10ng/ml), or TNFa (10 ng/ml).
Growth protocol
IMR-90 cells (ATCC, Manassas, VA; Catalog # CCL-186) were cultured in DMEM medium supplemented with 10% FBS (Sigma, St. Louis, MO; Catalog # F2442) and Penicillin/Streptomycin (Invitrogen, Carlsbad, CA; Catalog # 15140) on a bed of growth factor reduced Matrigel (GFR Matrigel, BD Biosciences, Bedford, MA; Catalog No. 354230) or plastic.
Extracted molecule
total RNA
Extraction protocol
RNeasy Mini Kit (Qiagen).
Label
Cy5
Label protocol
Biotinylated cRNA were prepared according to the standard Agilent protocol.
Channel 2
Source name
Stratagene Universal Human Reference RNA
Organism
Homo sapiens
Characteristics
sample type: reference
Extracted molecule
total RNA
Extraction protocol
Stratagene Universal Human Reference RNA (catalog number 740000).
Label
Cy3
Label protocol
Biotinylated cRNA were prepared according to the standard Agilent protocol.
Hybridization protocol
cRNA was hybridized on Agilent-014850 Whole Human Genome Microarray G4112F.
Scan protocol
Chips were scanned using the Agilent Surescan Microarray Scanner.
Description
SAM630153 treated with IL13 on matrigel
Data processing
The data were processed with Agilent Feature Extraction software, version 10.7.3.1, using default settings, including linear and Lowess normalization.
Submission date
May 30, 2013
Last update date
Dec 31, 2013
Contact name
Alex Abbas
E-mail(s)
abbas@gene.com
Organization name
Genentech, Inc.
Department
Bioinformatics
Street address
1 DNA Way
City
South San Francisco
State/province
CA
ZIP/Postal code
94080
Country
USA
Platform ID
GPL6480
Series (1)
GSE47542
IMR90 lung fibroblasts treated with IL-4 or IL-13
Data table header descriptions
ID_REF
VALUE
Agilent log2 ratio, test channel (ch1)/reference channel (ch2).
Data table
ID_REF
VALUE
A_23_P100001
-3.5153
A_23_P100011
0.24512
A_23_P100022
-1.2612
A_23_P100056
-1.8469
A_23_P100074
1.3592
A_23_P100092
0.17558
A_23_P100103
1.4149
A_23_P100111
1.6766
A_23_P100127
-3.6744
A_23_P100133
0.52431
A_23_P100141
0.72649
A_23_P100156
1.415
A_23_P100177
0.37947
A_23_P100189
-0.12642
A_23_P100196
-1.4123
A_23_P100203
0.87419
A_23_P100220
-3.3434
A_23_P100240
-2.8551
A_23_P10025
-1.388
A_23_P100263
2.0385
Total number of rows: 41107 Table truncated, full table size 800 Kbytes .Supplementary file
Size
Download
File type/resource
GSM1151932_Agilent_251485054074_S01_GE2_107_Sep09_1_1.txt.gz
4.4 Mb
(ftp) (http)
TXT
Processed data included within Sample table