GEO help: Mouse over screen elements for information.
Status
Public on Dec 01, 2012
Title
UT-SCC-16
Sample type
genomic
Source name
HNSCC
Organism
Homo sapiens Characteristics
cell line: HNSCC
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
1.000000
-0.388711
1.323452
nan
nan
CN_473964
1.000000
-0.396091
1.323500
nan
nan
CN_473965
1.000000
-0.146984
1.323510
nan
nan
CN_473981
1.000000
-0.394815
1.324230
nan
nan
CN_473982
1.000000
-0.347191
1.324241
nan
nan
CN_497981
1.000000
-1.075191
1.330858
nan
nan
CN_502615
2.000000
0.212208
1.340116
nan
nan
CN_502613
2.000000
-0.322595
1.340161
nan
nan
CN_502614
2.000000
-0.319289
1.340395
nan
nan
CN_502616
2.000000
-0.072759
1.340408
nan
nan
CN_502843
2.000000
-0.312336
1.349387
nan
nan
CN_466171
2.000000
-0.281097
2.349106
nan
nan
CN_468414
2.000000
0.433969
2.348822
nan
nan
CN_468412
2.000000
1.384640
2.348758
nan
nan
CN_468413
2.000000
-0.166325
2.348746
nan
nan
CN_470565
2.000000
-0.009193
2.348402
nan
nan
CN_468424
2.000000
-0.285299
2.343719
nan
nan
CN_468425
2.000000
-0.180620
2.343674
nan
nan
CN_460512
2.000000
0.329026
2.217044
nan
nan
CN_460513
2.000000
-0.163795
2.217043
nan
nan
1813441 93502 Kbytes .Supplementary file Size Download File type/resource GSM901094_UTSCC-16_GenomeWideSNP_6_.CEL.gz
28.2 Mb
(ftp) (http) CEL
GSM901094_UTSCC-16_GenomeWideSNP_6_.CN5.CNCHP.gz
34.6 Mb
(ftp) (http) CNCHP
Processed data included within Sample table Processed data provided as supplementary file
