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Sample GSM639747 Query DataSets for GSM639747
Status Public on Apr 07, 2011
Title Patient derived melanoma primum
Sample type genomic
Source name melanoma primum
Organism Homo sapiens
Characteristics gender: female
age: 58y
tissue: melanoma primum from patients back
Extracted molecule genomic DNA
Extraction protocol DNA was isolated by using the All Prep DNA Kit (Qiagen, Hilden, Germany) according to the manufacturer’s protocol.
Label biotin
Label protocol According to manufacturer protocol Affymetrix dsDNA terminal label
Hybridization protocol According to manufacturer protocol
Scan protocol According to manufacturer protocol
Data processing CEL files were processed via the genotyping console 3.0.1 using default parameters. CHP files were generated via the genotyping console 3.0.1 using default parameters. Normalization was performed using the birdseed v2 algorithm.
Submission date Dec 14, 2010
Last update date Apr 07, 2011
Contact name Mario Mikula
Organization name Medical University Vienna
Department General Dermatology
Street address WaehringergĂĽrtel 18-20
City Vienna
ZIP/Postal code 1090
Country Austria
Platform ID GPL6801
Series (1)
GSE26053 Tissue samples from the same individual patient

Data table header descriptions
VALUE Genotype Call (SNP call): AA, AB, BB, NC, and NoCall
CONFIDENCE A value in the range [0,1] with lower values corresponding to greater confidence
FORCED CALL This value is the genotyping call that would be made if the calling algorithm were tuned to the least stringency. Providing this value allows for determining what the calls would have been at a stringency different to that applied to the calls in the second field, without having to re-run the genotyping algorithm
SIGNAL A Summarized signal A
SIGNAL B Summarized signal B

Data table
SNP_A-2131660 AB 0.010710 AB 2588.129395 902.834106
SNP_A-1967418 AA 0.008429 AA 546.306396 378.524872
SNP_A-1969580 BB 0.007326 BB 841.129272 2563.140381
SNP_A-4263484 NC 0.195002 AB 1407.868530 278.975739
SNP_A-1978185 AA 0.007236 AA 1102.666382 304.902191
SNP_A-4264431 AA 0.008388 AA 1493.248047 335.792847
SNP_A-1980898 BB 0.011378 BB 221.088928 682.629395
SNP_A-1983139 AA 0.010284 AA 509.234497 323.740906
SNP_A-4265735 AA 0.008217 AA 919.931152 446.233032
SNP_A-1995832 NC 0.214308 AA 1365.347412 392.891754
SNP_A-1995893 AA 0.011670 AA 1421.182007 771.452148
SNP_A-1997689 BB 0.008671 BB 873.978638 2256.289307
SNP_A-1997709 AA 0.006738 AA 1258.475098 241.351181
SNP_A-1997896 AA 0.012068 AA 916.823792 515.846985
SNP_A-1997922 AA 0.009218 AA 666.836426 335.239655
SNP_A-2000230 AA 0.005996 AA 1998.701172 1047.595825
SNP_A-2000332 AA 0.010647 AA 2621.441162 1381.465942
SNP_A-2000337 AA 0.005201 AA 1646.555908 262.588531
SNP_A-2000342 AA 0.006814 AA 2744.659424 884.554016
SNP_A-4268173 NC 0.190715 BB 268.461823 1950.862549

Total number of rows: 909622

Table truncated, full table size 46146 Kbytes.

Supplementary file Size Download File type/resource
GSM639747.CEL.gz 30.2 Mb (ftp)(http) CEL
GSM639747.chp.gz 13.3 Mb (ftp)(http) CHP
Processed data included within Sample table
Processed data provided as supplementary file

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