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Sample GSM696157 Query DataSets for GSM696157
Status Public on Sep 05, 2012
Title H0033176
Sample type RNA
 
Source name T1284C
Organism Homo sapiens
Characteristics tissue: cancerous tissue
Treatment protocol Tissues were snap-frozen and stored at -80°C until further use.
Extracted molecule total RNA
Extraction protocol Human tissues measured approximately 60mm3 in volume were homogenized using the PowerGen 125 (Fisher Scientific, Pittsburgh, PA) in 600 µL of Lysis/Binding buffer provided in the mirVanaTM miRNA Isolation kit (Ambion/Applied Biosystems, Austin, TX) and then followed the manufacturer’s instruction to isolate total RNA.
Label Cy3
Label protocol 100 ng of total RNA per sample was dephosphorylated with calf intestine alkaline phosphatase and the pCp-Cy3 labeling molecule was ligated to the 3ʹ-ends of the RNA molecules, and then was purified using BioSpin6 (Bio-Rad, Hercules, CA).
 
Hybridization protocol Hybridization, washing, imaging, and signal extraction were performed according to Agilent-recommended procedures.
Scan protocol Slides were scanned on Agilent DNA microarray scanner (model G2565A).
Description MicroRNA expression in oral squamous cell carcinoma tissue
Data processing The scanned signals were extracted using Agilent Feature Extraction (FE) software version 9.5.3.1 to perform background correction, outlier rejection for each set of replicate features, and calculation of total gene signal for each probe on the array.
 
Submission date Mar 22, 2011
Last update date Sep 05, 2012
Contact name Hyun Min Jung
E-mail(s) hyunmin.jung@nih.gov
Phone 301-496-7940
Organization name National Institutes of Health
Department Division of Developmental Biology
Lab Weinstein Lab
Street address 6 Center Drive
City Bethesda
State/province MD
ZIP/Postal code 20892
Country USA
 
Platform ID GPL10850
Series (1)
GSE28100 Differential expression of microRNAs between oral squamous cell carcinoma and healthy control tongues

Data table header descriptions
ID_REF
VALUE VSN normalized

Data table
ID_REF VALUE
bkv-miR-B1-3p -1.236089295
bkv-miR-B1-5p 0.215617219
ebv-miR-BART1-3p -1.596607419
ebv-miR-BART1-5p -0.569622668
ebv-miR-BART10 1.047033609
ebv-miR-BART10* 0.944274556
ebv-miR-BART11-3p -1.874850491
ebv-miR-BART11-5p -0.097514444
ebv-miR-BART12 3.727919937
ebv-miR-BART13 5.688187693
ebv-miR-BART13* -0.940670403
ebv-miR-BART14 -1.571828234
ebv-miR-BART14* -1.363116286
ebv-miR-BART15 -0.514397226
ebv-miR-BART16 2.844275356
ebv-miR-BART17-3p 0.567710118
ebv-miR-BART17-5p -2.822066677
ebv-miR-BART18-3p -1.092759123
ebv-miR-BART18-5p -0.339943243
ebv-miR-BART19-3p 4.126422592

Total number of rows: 939

Table truncated, full table size 23 Kbytes.




Supplementary file Size Download File type/resource
GSM696157_252182711384_S01_1_2_GeneView.txt.gz 10.9 Kb (ftp)(http) TXT
Processed data included within Sample table

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