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Sample GSM432950 Query DataSets for GSM432950
Status Public on Jul 01, 2015
Title PC 74 TS
Sample type RNA
 
Source name Prostate Biopsy
Organism Homo sapiens
Characteristics Tumor Stem Cells
Batch 1
Extracted molecule total RNA
Extraction protocol Qiagen miRNeasy (miR+mRNA)
Label Hy3
Label protocol Refer to miRCURY LNA (TM) microRNA Array Power Labeling Kit
 
Hybridization protocol Refer to miRCURY LNA (TM) microRNA Array microarray kit instruction manual v9.2
(manual procedure)
Scan protocol Scanner=GenePix 4000B [92209]
PixelSize=10
BackgroundSubtraction=LocalFeature
PMTGain=650
Genepix software package was used to generate an intensity value for each probe by taking the median spot intensity and subtracting the median local background. Bad spots or areas of the array with obvious defects were manually flagged. Flagged spots were not included in subsequent analyses.
Description N/A
Data processing The hsa_negative probes were averaged for each array and used as a threshold value. The array's threshold was subtracted from all of the array's averaged discovery probes. PC73 TNE was the overlapping standard run in each of the six batches. Comparison of the overlapping sample was used to carry out an inter-batch normalization.
 
Submission date Jul 24, 2009
Last update date Jul 01, 2015
Contact name John Michael Krill-Burger
E-mail(s) burgerm@upmc.edu
Phone 412-656-6727
Organization name University of Pittsburgh Medical Center
Street address Rm. WG21.3 Shadyside Hospital
City Pittsburgh
State/province PA
ZIP/Postal code 15232
Country USA
 
Platform ID GPL7724
Series (1)
GSE17321 miRNA Expression in 4 prostate cell types from human tumor biopsies

Data table header descriptions
ID_REF
Raw Raw Intensity Average of Replicate Probes
VALUE Average Intensity - Threshold with Interbatch Normalization

Data table
ID_REF Raw VALUE
4610 438.5 267.4660332
4700 284.75 63.84001354
4890 4201.25 5103.472275
5250 220 -22.05616293
5560 1513 1677.33293
5730 458 293.2579886
5740 27744.75 28933.48198
6880 263.5 35.65939242
7190 300.75 85.05240355
9578 8221.5 9957.529667
10306 533.5 393.0474239
10482 328.25 121.4992364
10586 613.75 498.9900132
10618 416 237.6966348
10916 293.5 75.4411737
10919 990.25 994.3094133
10925 499.75 348.4536544
10928 2372 2787.830414
10930 290.25 71.13235011
10931 300 84.05818715

Total number of rows: 685

Table truncated, full table size 16 Kbytes.




Supplementary file Size Download File type/resource
GSM432950_2_08_0079_13768720_081508.txt.gz 719.6 Kb (ftp)(http) TXT
Processed data included within Sample table

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