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Sample GSM1008862 Query DataSets for GSM1008862
Status Public on Jan 01, 2013
Title OSCC mRNA 449
Sample type RNA
 
Source name OSCC
Organism Homo sapiens
Characteristics gender: M
source tissue: Tongue
tissue: Oral cavity squamous cell carcinoma tumor
case: 449
Extracted molecule total RNA
Extraction protocol Tri-reagent (Sigma)
Label biotin
Label protocol Standard Affymetrix protocol
 
Hybridization protocol Standard Affymetrix protocol
Scan protocol Standard Affymetrix protocol
Description Tongue
Data processing Used aroma.affymetrix package in R for data processing. We performed background correction using RMA and quantile normalization. Then we estimated the overall expression for the transcript using ExonRmaPlm function.
probe group file not applicable
HuEx-1_0-st-v2.na32.hg19.probeset.csv
 
Submission date Sep 24, 2012
Last update date Jan 01, 2013
Contact name Jianjun Zhang
E-mail(s) JZhang20@mdanderson.org
Organization name UT MD Anderson Cancer Center
Department Thoracic-Head & Neck Med Onc
Street address 1515 Holcombe Blvd
City Houston
State/province TX
ZIP/Postal code 77030
Country USA
 
Platform ID GPL5175
Series (2)
GSE41116 Integrative genomic characterization of oral squamous cell carcinoma identifies frequent somatic drivers (mRNA)
GSE41117 Integrative genomic characterization of oral squamous cell carcinoma identifies frequent somatic drivers

Data table header descriptions
ID_REF
VALUE background corrected, quantile normalized and log2 transformed data

Data table
ID_REF VALUE
2315251 6.226970845
2315373 6.893749422
2315554 7.986053723
2315633 8.215842974
2315674 7.710796031
2315739 8.512157409
2315894 8.882417017
2315918 6.925686268
2315951 8.774498138
2316069 8.485577157
2316218 6.43771398
2316245 9.031850428
2316379 10.28910199
2316558 9.539512882
2316605 7.972970849
2316746 8.165493279
2316905 6.755821766
2316953 7.220188329
2317246 7.425895209
2317317 8.117564476

Total number of rows: 18708

Table truncated, full table size 363 Kbytes.




Supplementary file Size Download File type/resource
GSM1008862_1067_CP_039_HuEx-1_0-st-v2_.CEL.gz 24.5 Mb (ftp)(http) CEL
Processed data included within Sample table

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