NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM1008864 Query DataSets for GSM1008864
Status Public on Jan 01, 2013
Title OSCC mRNA 537
Sample type RNA
 
Source name OSCC
Organism Homo sapiens
Characteristics gender: M
source tissue: Buccal
tissue: Oral cavity squamous cell carcinoma tumor
case: 537
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 Buccal
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 Jiexin Zhang
E-mail(s) jiexinzhang@mdanderson.org
Organization name UT MD Anderson Cancer Center
Department Bioinformatics & Computational Biology
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 5.635990506
2315373 7.39742683
2315554 8.442987902
2315633 8.250284826
2315674 8.734335958
2315739 8.79784089
2315894 8.976730785
2315918 7.231551093
2315951 8.749094518
2316069 8.723845166
2316218 6.925766934
2316245 9.278296027
2316379 9.673759472
2316558 9.403377335
2316605 8.331705194
2316746 8.528227666
2316905 7.237345794
2316953 7.640500141
2317246 7.815562425
2317317 8.342268403

Total number of rows: 18708

Table truncated, full table size 363 Kbytes.




Supplementary file Size Download File type/resource
GSM1008864_1067_CP_041_HuEx-1_0-st-v2_.CEL.gz 24.3 Mb (ftp)(http) CEL
Processed data included within Sample table

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap