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Sample GSM673254 Query DataSets for GSM673254
Status Public on Jun 17, 2011
Title Plasma_Pellet1_rep7
Sample type RNA
Source name Pellet 1
Organism Homo sapiens
Characteristics tissue: plasma-derived
subfraction: pellet 1
disease state: healthy
population: Caucasian
Treatment protocol All samples were initially spun at 1700g for 10 minutes to separate the plasma from the Buffy Coat and Red Blood Cells. Leukocytes were separately isolated from whole blood fractionated through Ficoll-Hypaque gradients. The plasma was re-centrifuged at 2000g for 10 minutes to obtain the Supernatant 1 (S1) and Pellet 1 (P1) fractions. The S1 fraction was additionally centrifuged at 12000g for 10 minutes to generate the Supernatant 2 (S2) and Pellet 2 (P2) fractions.
Growth protocol Blood was drawn in sodium EDTA tubes and processed within 4 hours of draw.
Extracted molecule total RNA
Extraction protocol Total RNA was extracted using Trizol-LS, Phenol:Chloroform and purified through Ambion mirVANA columns.
Label biotin
Label protocol A total of 500-1000ng of total RNA was labelled using the Genisphere HSR labelling Kit (
Hybridization protocol The total amount of RNA was hybridized to the arrays for 16 hours at 48C with rotation at 60rpm.
Scan protocol Samples were scanned using the GCS 3000 7G Scanner and processed using miRNA_1-0_2xgain library files.
Description P1_7
miRNA expression data.
Data processing The data was preprocessed using the Affymetrix miRNA QC tool where Individual feature intensities were flagged by detection calls, background subtracted, transformed through addition of a small constant (value equal to 16) and median summarized. Non-normalized data was analyzed to preserve the individual distributions for rank correlation analysis.
Submission date Feb 10, 2011
Last update date Jun 17, 2011
Contact name Radha Duttagupta
Phone 408-731-5691
Fax 408-731-5463
Organization name Affymetrix
Department Applied Research
Street address 3450 Central Expressway
City Santa Clara
State/province CA
ZIP/Postal code 95051
Country USA
Platform ID GPL8786
Series (2)
GSE27230 Analysis of the impact of cellular miRNA signatures on the profiles of circulating miRNA biomarkers (fractionation data)
GSE27256 Impact of cellular miRNAs on the biomarker signatures of circulating miRNAs

Data table header descriptions
VALUE Background-subtracted, transformed, non-normalized data

Data table
14q-0_st 4.087462841
14qI-1_st 4.523561956
14qI-2_st 4.169925001
14qI-3_x_st 4
14qI-4_st 4.087462841
14qI-4_x_st 4
14qI-5_st 4.64385619
14qI-6_st 3.584962501
14qI-6_x_st 4
14qI-7_st 4.209453366
14qI-8_st 4.087462841
14qI-8_x_st 3.95419631
14qI-9_x_st 4.247927513
14qII-1_st 3.584962501
14qII-1_x_st 3.700439718
14qII-10_st 3.906890596
14qII-11_st 4.087462841
14qII-11_x_st 3.807354922
14qII-12_st 3.642701109
14qII-12_x_st 4.087462841

Total number of rows: 7752

Table truncated, full table size 208 Kbytes.

Supplementary file Size Download File type/resource
GSM673254.CEL.gz 170.5 Kb (ftp)(http) CEL
Processed data included within Sample table

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