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Sample GSM1008828 Query DataSets for GSM1008828
Status Public on Jan 01, 2013
Title OSCC mRNA 166
Sample type RNA
 
Source name OSCC
Organism Homo sapiens
Characteristics gender: M
source tissue: Tongue
tissue: Oral cavity squamous cell carcinoma tumor
case: 166
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 5.076664428
2315373 7.318385998
2315554 8.530472064
2315633 8.315450466
2315674 8.201819411
2315739 8.667963789
2315894 8.997503749
2315918 7.378494372
2315951 8.985172163
2316069 8.742518738
2316218 7.063454826
2316245 8.779151744
2316379 9.704794935
2316558 9.410106207
2316605 8.462712317
2316746 8.692062058
2316905 7.311210878
2316953 7.618058788
2317246 7.80980129
2317317 8.507728476

Total number of rows: 18708

Table truncated, full table size 363 Kbytes.




Supplementary file Size Download File type/resource
GSM1008828_1067_CP_005_10-20-10_HuEx-1_0-st-v2_.CEL.gz 23.9 Mb (ftp)(http) CEL
Processed data included within Sample table

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