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Sample GSM453683 Query DataSets for GSM453683
Status Public on Dec 01, 2009
Title E2_24h vs. WT V
Sample type RNA
 
Channel 1
Source name WT uterus, E2, 24h
Organism Mus musculus
Characteristics strain: C57BL/6
gender: female
age: 10+ weeks
tissue: uterus
Extracted molecule total RNA
Extraction protocol Trizol with Qiagen RNA easy clean up
Label Cy3
Label protocol Total RNA was amplified using the Agilent Low RNA Input Fluorescent Linear Amplification Kit protocol.  Starting with 500ng of total RNA, Cy5 labeled cRNA was produced according to manufacturer’s protocol. 
 
Channel 2
Source name WT uterus, vehicle, 24h
Organism Mus musculus
Characteristics strain: C57BL/6
gender: female
age: 10+ weeks
tissue: uterus
Extracted molecule total RNA
Extraction protocol Trizol with Qiagen RNA easy clean up
Label Cy5
Label protocol Total RNA was amplified using the Agilent Low RNA Input Fluorescent Linear Amplification Kit protocol.  Starting with 500ng of total RNA, Cy3 labeled cRNA was produced according to manufacturer’s protocol. 
 
 
Hybridization protocol For each two color comparison, 750ng of each Cy3 and Cy5 labeled cRNAs were mixed and fragmented using the Agilent In Situ Hybridization Kit protocol.  Hybridizations were performed for 17 hours in a rotating hybridization oven using the Agilent 60-mer oligo microarray processing protocol. 
Scan protocol Slides were washed as indicated in the Agilent 60-mer oligo microarray processing protocol and then scanned with an Agilent Scanner. Data was obtained using the Agilent Feature Extraction software, using defaults for all parameters.
Description pooled RNA from three vehicle or three treated uteri
Data processing Data was obtained using the Agilent Feature Extraction software (v8.1), using defaults for all parameters and loaded into the Rosetta Resolver® system (v6.0) (Rosetta Biosoftware, Kirkland, WA).
 
Submission date Sep 17, 2009
Last update date Sep 22, 2009
Contact name NIEHS Microarray Core
E-mail(s) microarray@niehs.nih.gov, liuliw@niehs.nih.gov
Organization name NIEHS
Department DIR
Lab Microarray Core
Street address 111 T.W. Alexander Drive
City RTP
State/province NC
ZIP/Postal code 27709
Country USA
 
Platform ID GPL7202
Series (1)
GSE18168 Uterine gene profiles from WT, KIKO (DNA-binding deficient ERα) and aERKO mice treated with estradiol or xenoestrogens

Data table header descriptions
ID_REF Agilent probe IDs from the Mouse Genome 4x44 array
VALUE log2 of ratio of treatment/control
PRE_VALUE Ratio of Cy5/Cy3 exported from Rosetta Resolver
INV_VALUE log2 of ratio of Cy5/Cy3

Data table
ID_REF VALUE PRE_VALUE INV_VALUE
A_52_P305654 0.189 0.87719 -0.1890
A_52_P891296 0.0000 1 0.0000
A_51_P243283 -0.5649 1.47927 0.5649
A_52_P62270 0.4842 0.71487 -0.4842
A_51_P362627 -0.2225 1.16676 0.2225
A_52_P229709 0.6674 0.62962 -0.6674
A_52_P662142 0.0000 1 0.0000
A_52_P112017 0.3146 0.80407 -0.3146
A_51_P163444 -0.2857 1.21898 0.2857
A_51_P270605 0.3846 0.766 -0.3846
A_51_P239367 -1.3052 2.47111 1.3052
A_51_P442759 0.8041 0.57273 -0.8041
A_51_P106443 1.3787 0.38457 -1.3787
A_51_P460247 -0.205 1.15266 0.2050
A_51_P275658 -0.0292 1.02043 0.0292
A_52_P1044206 0.0000 1 0.0000
A_52_P473542 -0.279 1.21335 0.2790
A_51_P145507 0.1297 0.91402 -0.1297
A_52_P441355 1.0702 0.47624 -1.0702
A_52_P219216 -0.079 1.05631 0.0790

Total number of rows: 41150

Table truncated, full table size 1401 Kbytes.




Supplementary file Size Download File type/resource
GSM453683_US22502532_251486814795_S02_GE2-v5_91_0806_1_3.txt.gz 14.2 Mb (ftp)(http) TXT
GSM453683_US22502532_251486814795_S02_H.tif.gz 112.2 Mb (ftp)(http) TIFF
GSM453683_US22502532_251486814795_S02_L.tif.gz 82.4 Mb (ftp)(http) TIFF
Processed data included within Sample table

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