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Sample GSM348314 Query DataSets for GSM348314
Status Public on Jul 22, 2009
Title ER alpha KO
Sample type other
Source name whole embryo of ER alpha KO
Organism Mus musculus
Characteristics Strain: C57BL/6
Tissue: whole embryo
Extracted molecule other
Extraction protocol To isolate miRNA fractions from total RNA, 100μg total RNA was fractionated and cleaned up with the flashPAGETM fractionator System and reagents (Ambion) per the manufacturer’s recommendation.
Label Cy5
Label protocol mirVanaTM miRNA Labeling Kit (Ambion) and amine-reactive dyes as recommended by the manufacturer.
Hybridization protocol A 3x miRNA Hybridization Buffer (Ambion) was added to the fluorescently labeled miRNAs and the solution was heated at 95ºC for 3 min. Slides were hybridized form 12 to 16 h at 42 ºC in sealed cassettes using a water bath. Following hybridization, the slides were washed and dried prior to a high-resolution scan.
Scan protocol Scan on a GenePix 4000B (Axon Instruments, CA, USA). Raw data were normalized and analyzed using Array-Pro Analyzer Version 4.5 (Media Cybernetics, Inc., Silver Spring, MD, USA).
Description whole embryo of Estrogen receptor (ER) alpha knockout mice at E18.5
Data processing We used Array-Pro Analyzer Ver4.5 (Media Cybernetics, Inc., Silver Spring, MD, USA) to determine the signal intensity of each spot and its local background on microarrays. We calculated net intensity by subtracting the mean intensity of all pixels within the local background area from the mean intensity of all pixels within the spot areas.
Submission date Dec 08, 2008
Last update date Jul 22, 2009
Contact name kaoru yamagata
Organization name university of tokyo
Street address yayoi 1-1-1
City bukyo-ku
State/province Tokyo
ZIP/Postal code 113-0032
Country Japan
Platform ID GPL5105
Series (2)
GSE13859 Global survey of miRNA microarray of whole embryo, wild type vs estrogen receptor alpha knockout mice
GSE14031 Global survey of miRNA profiles in the uterus and an estrogen receptor alpha knockout embryo

Data table header descriptions
VALUE Net Intensity after Normalization

Data table
PS20108 113.6055657
PS20132 101.1883643
PS20156 89.99860533
PS20180 88.43659967
PS20106 95.61479467
PS20130 92.56003967
PS20154 98.694056
PS20178 92.72732133
PS20104 99.94600467
PS20128 93.78641633
PS20152 92.61224867
PS20176 95.71495033
PS20102 94.38522133
PS20126 91.05450433
PS20150 93.39644767
PS20174 108.610556
PS20124 95.022383
PS20148 92.39169233
PS20172 95.59455033
PS20122 85.92311267

Total number of rows: 377

Table truncated, full table size 7 Kbytes.

Supplementary file Size Download File type/resource
GSM348314.jpg.gz 159.4 Kb (ftp)(http) JPG
GSM348314.txt.gz 6.3 Kb (ftp)(http) TXT
Processed data included within Sample table

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