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Sample GSM901101 Query DataSets for GSM901101
Status Public on Dec 01, 2012
Title UT-SCC-47
Sample type genomic
 
Source name HNSCC
Organism Homo sapiens
Characteristics cell line: HNSCC
cetuximab response: cetuximab sensitive
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 2.000000 -0.247021 1.442954 nan nan
CN_473964 2.000000 -0.554589 1.442986 nan nan
CN_473965 2.000000 -0.406450 1.442992 nan nan
CN_473981 2.000000 -0.453265 1.443473 nan nan
CN_473982 2.000000 -0.069636 1.443480 nan nan
CN_497981 2.000000 -0.047395 1.447669 nan nan
CN_502615 2.000000 -0.091154 1.452894 nan nan
CN_502613 2.000000 -0.366088 1.452918 nan nan
CN_502614 2.000000 -0.134591 1.453041 nan nan
CN_502616 2.000000 -0.103961 1.453047 nan nan
CN_502843 2.000000 -0.391306 1.457448 nan nan
CN_466171 2.000000 -0.355135 2.343293 nan nan
CN_468414 2.000000 0.486756 2.342939 nan nan
CN_468412 2.000000 0.525754 2.342859 nan nan
CN_468413 2.000000 0.632329 2.342845 nan nan
CN_470565 2.000000 0.260369 2.342417 nan nan
CN_468424 2.000000 -0.329158 2.336594 nan nan
CN_468425 2.000000 -0.340657 2.336538 nan nan
CN_460512 2.000000 1.518201 10.265853 nan nan
CN_460513 2.000000 1.105026 10.265848 nan nan

Total number of rows: 1813441

Table truncated, full table size 93667 Kbytes.




Supplementary file Size Download File type/resource
GSM901101_UTSCC-47_GenomeWideSNP_6_.CEL.gz 30.0 Mb (ftp)(http) CEL
GSM901101_UTSCC-47_GenomeWideSNP_6_.CN5.CNCHP.gz 34.7 Mb (ftp)(http) CNCHP
Processed data included within Sample table
Processed data provided as supplementary file

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