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Status
Public on Dec 01, 2012
Title
UT-SCC-15
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
2.000000
-0.199542
1.876320
nan
nan
CN_473964
2.000000
-0.096953
1.876310
nan
nan
CN_473965
2.000000
-0.014125
1.876308
nan
nan
CN_473981
2.000000
-0.419354
1.876170
nan
nan
CN_473982
2.000000
0.431886
1.876168
nan
nan
CN_497981
2.000000
0.222105
1.874923
nan
nan
CN_502615
2.000000
0.082619
1.873283
nan
nan
CN_502613
2.000000
-0.086095
1.873275
nan
nan
CN_502614
2.000000
0.150762
1.873235
nan
nan
CN_502616
2.000000
-0.706156
1.873233
nan
nan
CN_502843
2.000000
0.065366
1.871777
nan
nan
CN_466171
2.000000
0.295520
1.400612
nan
nan
CN_468414
2.000000
-1.292617
1.400454
nan
nan
CN_468412
2.000000
0.295149
1.400419
nan
nan
CN_468413
2.000000
0.573870
1.400412
nan
nan
CN_470565
2.000000
-0.701430
1.400221
nan
nan
CN_468424
2.000000
-0.376258
1.397618
nan
nan
CN_468425
2.000000
-0.799806
1.397593
nan
nan
CN_460512
2.000000
0.317829
3.672062
nan
nan
CN_460513
2.000000
0.656625
3.672064
nan
nan
1813441 93645 Kbytes .Supplementary file Size Download File type/resource GSM901097_UTSCC-15_GenomeWideSNP_6_.CEL.gz
29.3 Mb
(ftp) (http) CEL
GSM901097_UTSCC-15_GenomeWideSNP_6_.CN5.CNCHP.gz
34.6 Mb
(ftp) (http) CNCHP
Processed data included within Sample table Processed data provided as supplementary file
