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Status
Public on Dec 31, 2013
Title
IL4_plastic_rep2
Sample type
RNA
Channel 1
Source name
IMR90, plastic, IL4
Organism
Homo sapiens
Characteristics
cell line: IMR90 cell type: lung fibroblasts substrate: plastic treatment: IL4 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
SAM630163 treated with IL4 on plastic
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
-3.8311
A_23_P100011
0.18034
A_23_P100022
-0.91823
A_23_P100056
-1.7493
A_23_P100074
1.6103
A_23_P100092
0.49174
A_23_P100103
0.90537
A_23_P100111
0.55731
A_23_P100127
0.62674
A_23_P100133
0.14537
A_23_P100141
0.31614
A_23_P100156
0.65197
A_23_P100177
-1.9132
A_23_P100189
0.13918
A_23_P100196
-1.0407
A_23_P100203
0.028544
A_23_P100220
-3.3257
A_23_P100240
-3.7286
A_23_P10025
-2.4915
A_23_P100263
0.70623
Total number of rows: 41107 Table truncated, full table size 811 Kbytes .Supplementary file
Size
Download
File type/resource
GSM1151942_Agilent_251485054011_S01_GE2_107_Sep09_1_3.txt.gz
4.4 Mb
(ftp) (http)
TXT
Processed data included within Sample table