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Sample GSM337896 Query DataSets for GSM337896
Status Public on Aug 21, 2009
Title WT_OVA_rep2
Sample type RNA
Source name Lung tissues from littermate control mice challenged with OVA
Organism Mus musculus
Characteristics C57BL/6
Extracted molecule total RNA
Extraction protocol Total RNA was extracted using Qiagen RNEasy columns. RNA integrity was confirmed using an Agilent 2100 Bioanalyzer
Label Cy3
Label protocol 400ng of RNA was amplified and labeled using the One-Color Agilent Low RNA Input Linear Amplification Kit
Hybridization protocol Labeled cRNA was assessed using the Nandrop ND-100 , and equal amounts of Cy3 labeled target were hybridized to Agilent whole genome custom arrays (platform acc# GPL7202). Hybridizations were performed for 14 hrs, according to the manufacturers protocol.
Scan protocol Arrays were scanned using the Agilent microarray scanner
Description 11 arrays were hybridized and represent 3 lung samples for groups WT saline, WT OVA and KO OVA. There are 2 samples for the KO saline group.
Data processing Raw signal intensities were extracted with Feature Extraction v9.1 software (Agilent). The dataset was normalized using the quantile normalization method. The median feature pixel intensity was used as the raw signal before normalization and no background subtraction was performed.
Submission date Oct 28, 2008
Last update date Aug 21, 2009
Contact name Andrea J Barczak
Organization name UCSF Sandler Center Functional Genomics Core Facility
Street address 1550 4th St Rock Hall 545
City San Francisco
State/province CA
ZIP/Postal code 94143
Country USA
Platform ID GPL7202
Series (1)
GSE13382 Distinct roles of FOXA2 and FOXA3 in allergic airway disease

Data table header descriptions
VALUE Normalized log2 signal intensity

Data table
A_52_P616356 6.337419177
A_52_P580582 11.41042726
A_52_P403405 6.10567046
A_52_P819156 7.029412728
A_51_P331831 12.84388537
A_51_P430630 6.480881979
A_52_P502357 5.855717944
A_52_P299964 6.499845887
A_51_P356389 6.810279503
A_52_P684402 9.067923203
A_51_P414208 5.829434456
A_51_P280918 9.011417874
A_52_P613688 8.757465775
A_52_P258194 6.412088644
A_52_P229271 6.619386331
A_52_P214630 8.714713849
A_52_P579519 8.250513762
A_52_P979997 5.622717423
A_52_P453864 6.535628848
A_52_P655842 6.412088644

Total number of rows: 41174

Table truncated, full table size 998 Kbytes.

Supplementary file Size Download File type/resource
GSM337896.txt.gz 9.1 Mb (ftp)(http) TXT
Processed data included within Sample table

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