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Sample GSM337898 Query DataSets for GSM337898
Status Public on Aug 21, 2009
Title Foxa3-/-_OVA_rep1
Sample type RNA
Source name Lung tissue from Foxa3 KO 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 6.158953884
A_52_P580582 11.23479022
A_52_P403405 6.048363022
A_52_P819156 7.217847573
A_51_P331831 12.00533746
A_51_P430630 6.14974712
A_52_P502357 5.838057883
A_52_P299964 6.462409318
A_51_P356389 6.713620839
A_52_P684402 8.859534786
A_51_P414208 6.028408415
A_51_P280918 8.91132389
A_52_P613688 8.956574162
A_52_P258194 6.453457718
A_52_P229271 6.660158002
A_52_P214630 7.978580469
A_52_P579519 8.072924307
A_52_P979997 5.759131618
A_52_P453864 7.048363022
A_52_P655842 6.273583703

Total number of rows: 41174

Table truncated, full table size 997 Kbytes.

Supplementary file Size Download File type/resource
GSM337898.txt.gz 9.1 Mb (ftp)(http) TXT
Processed data included within Sample table

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