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Sample GSM901092 Query DataSets for GSM901092
Status Public on Dec 01, 2012
Title UT-SCC-1A
Sample type genomic
 
Source name HNSCC
Organism Homo sapiens
Characteristics cell line: HNSCC
cetuximab response: cetuximab resistant
Treatment protocol Cells were seeded and allowed to attach for 24h, then treated with 30 nM cetuximab for 48h, supplemented with fresh medium and grown for another 7 days
Growth protocol Cells were grown in DMEM supplemented with 10% FBS, 2 mM glutamine, 1% NE amino acids, and penicillin and streptomycin
Extracted molecule genomic DNA
Extraction protocol DNA was extracted with Maxwell 16 Cell purification kit
Label biotin
Label protocol DNA fragments were biotin labelled using terminal deoxynucleotidyl transferase
 
Hybridization protocol Hybridized in GeneChip Hybrydization oven 16-18h, stained with R-phycoerythrin streptavidin and biotinylated goat-anti-streptavidin antibodies
Scan protocol GeneChip scanner 3000 7G
Data processing Genotyping console, CN5 algorithm
 
Submission date Mar 26, 2012
Last update date Dec 01, 2012
Contact name Fredrik Jerhammar
E-mail(s) fredrik.jerhammar@liu.se
Phone +4613221500
Organization name Linkoping University
Street address -
City Linkoping
ZIP/Postal code 58183
Country Sweden
 
Platform ID GPL6801
Series (1)
GSE36790 Cetuximab resistant or sensitive head and neck cancer samples

Data table header descriptions
ID_REF
VALUE CN STATE
LOG2 RATIO
SMOOTH SIGNAL
LOH
ALLELE DIFFERENCE

Data table
ID_REF VALUE LOG2 RATIO SMOOTH SIGNAL LOH ALLELE DIFFERENCE
CN_473963 3.000000 0.345972 2.615029 nan nan
CN_473964 3.000000 -0.129647 2.615235 nan nan
CN_473965 3.000000 0.026661 2.615277 nan nan
CN_473981 3.000000 -0.086503 2.618372 nan nan
CN_473982 3.000000 -0.026221 2.618420 nan nan
CN_497981 3.000000 0.194448 2.646285 nan nan
CN_502615 3.000000 0.310079 2.683631 nan nan
CN_502613 3.000000 0.219880 2.683806 nan nan
CN_502614 3.000000 0.660838 2.684730 nan nan
CN_502616 3.000000 0.807727 2.684778 nan nan
CN_502843 3.000000 0.156742 2.719299 nan nan
CN_466171 3.000000 -0.010981 2.332301 nan nan
CN_468414 3.000000 0.124228 2.331797 nan nan
CN_468412 3.000000 0.996604 2.331684 nan nan
CN_468413 3.000000 0.527137 2.331663 nan nan
CN_470565 3.000000 0.251031 2.331054 nan nan
CN_468424 2.000000 -0.583350 2.322777 nan nan
CN_468425 2.000000 -0.454296 2.322697 nan nan
CN_460512 2.000000 0.352987 2.618792 nan nan
CN_460513 2.000000 0.079331 2.618791 nan nan

Total number of rows: 1813441

Table truncated, full table size 93639 Kbytes.




Supplementary file Size Download File type/resource
GSM901092_UTSCC-1_GenomeWideSNP_6_.CEL.gz 29.2 Mb (ftp)(http) CEL
GSM901092_UTSCC-1_GenomeWideSNP_6_.CN5.CNCHP.gz 34.8 Mb (ftp)(http) CNCHP
Processed data included within Sample table
Processed data provided as supplementary file
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