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Sample GSM281713 Query DataSets for GSM281713
Status Public on Jul 30, 2009
Title 1 fmole of miRNAs
Sample type mixed
 
Channel 1
Source name miRNAs from mirVana miRNA Reference Panel v9.1
Organism synthetic construct
Characteristics synthetic RNAs coresponding to human miRNAs
Extracted molecule total RNA
Extraction protocol commercially available
Label DY547
Label protocol Different amounts of miRNA standards in the panel were ligated to a synthetic linker 5’-pCU-DY547-3’. DNA oligonucleotides (Invitrogen) complementary to a subset of mammalian miRNAs were combined and labeled with a ULYSIS® Alexa Fluor® 647 kit.
 
Channel 2
Source name synthetic
Organism synthetic construct
Characteristics synthetic DNA oligos corrresponding to human miRNAs
Extracted molecule other
Extraction protocol commercially available
Label Alexa Fluor® 647
Label protocol Different amounts of miRNA standards in the panel were ligated to a synthetic linker 5’-pCU-DY547-3’. DNA oligonucleotides (Invitrogen) complementary to a subset of mammalian miRNAs were combined and labeled with a ULYSIS® Alexa Fluor® 647 kit.
 
 
Hybridization protocol A mixture of labeled RNA and DNA was hybridized to a miRNA microarray (Thomson et al) inside a MAUI mixer in a MAUI hybridization system (BioMicro® System Inc Salt Lake City UT USA). Thomson J.M. Parker J. Perou C.M. and S.M. Hammond. 2004. A custom microarray platform for analysis of microRNA gene expression. Nat. Methods 1: 47-53. Epub 2004 Sep 29.
Scan protocol Slides were scanned with a ScanArray 5000 machine (Perkin Elmer® Waltham MA USA).
Description We hybridized different amounts of microRNAs from the mirVana miRNA Reference Panel v9.1 to microarrays.
Data processing BlueFuse (BlueGenome Cambridge UK) was used to quantify pixel intensities. GeneSpring GX 7.3.1 (Agilent Technologies) was used for data normalization.
 
Submission date Apr 15, 2008
Last update date Jan 20, 2009
Contact name Xiaoxiao Zhang
E-mail(s) zhang688@umn.edu
Organization name University of Minnesota
Street address 312 Church St. SE
City Minneapolis
ZIP/Postal code 55455
Country USA
 
Platform ID GPL6743
Series (1)
GSE11176 Estimation of miRNAs

Data table header descriptions
ID_REF
VALUE Data processed by Bluefuse is absolute value and from GeneSpring is normalized ratio with flagged values removed
raw signal
UNF_VALUE Data processed by Bluefuse is absolute value and from GeneSpring is normalized ratio.

Data table
ID_REF VALUE raw signal UNF_VALUE
1 6.998 24533 6.998
2 6.679 7607 6.679
3 6.093 9674 6.093
4 6.763 22604 6.763
5 31.46 9657 31.46
6 7.236 16798 7.236
7 7.269 10275 7.269
8 6.516 3272 6.516
9 7.537 21454 7.537
10 6.799 14670 6.799
11 8.742 8775 8.742
12 6.216 5509 6.216
13 6.212 1440 6.212
14 7.315 29904 7.315
15 10.08 11298 10.08
16 7.762 6505 7.762
17 6.54 6684 6.54
18 8.751 11008 8.751
19 7.885 6070 7.885
20 4.798 1217 4.798

Total number of rows: 467

Table truncated, full table size 9 Kbytes.




Supplementary file Size Download File type/resource
GSM281713.txt.gz 77.3 Kb (ftp)(http) TXT
Processed data included within Sample table

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