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Sample GSM1633962 Query DataSets for GSM1633962
Status Public on Jun 01, 2016
Title Myeloma sample [EMC_2909282_v1]
Sample type genomic
 
Source name Myeloma sample (germ line DNA; amplified)
Organism Homo sapiens
Characteristics sample group: BiPN (grade 2 or higher)
tissue: Peripheral blood
Treatment protocol All patients were treated within the HOVON65/GMMG-HD4 study. Samples were untreated.
Extracted molecule genomic DNA
Extraction protocol DNA was extracted using salting out precipitation
Label biotin
Label protocol Biotin labeling according to standard protocol (Affymetrix)
 
Hybridization protocol Hybridization according to protocol in hybridization ovens for 16 to 18 hours at 50 °C and 60 rpm (Affymetrix)
Scan protocol GeneChip Scanner 3000 7G, controlled by AGCC software, was used, according to a standard protocol (Affymetrix).
Description chips run by Aros
Data processing Bioconductor CRLMM
Out of 906,600 tagging SNPs, only the 370, 605 autosomal SNPs with a homozygosity in at least 5% of patients, a genotype call in at least 95% of patients and fulfilling a Hardy-Weinberg equilibrium P > 10^-5 were used.
 
Submission date Mar 13, 2015
Last update date Jun 01, 2016
Contact name Mark van Duin
Organization name Erasmus MC
Street address Wytemaweg 80
City Rotterdam
ZIP/Postal code 3015CN
Country Netherlands
 
Platform ID GPL6801
Series (1)
GSE66903 Genome wide association study on neuropathy in multiple myeloma

Data table header descriptions
ID_REF
VALUE AA, AB, BB, NC, or NoCall

Data table
ID_REF VALUE
SNP_A-1781105 BB
SNP_A-1995774 AB
SNP_A-4267348 BB
SNP_A-2000076 BB
SNP_A-2008241 AA
SNP_A-2013861 AB
SNP_A-2021661 BB
SNP_A-4281150 NoCall
SNP_A-2109340 AB
SNP_A-2149769 BB
SNP_A-4301875 BB
SNP_A-1895250 BB
SNP_A-4208035 BB
SNP_A-1964463 AB
SNP_A-1966771 BB
SNP_A-4262668 BB
SNP_A-4262895 AB
SNP_A-1968961 BB
SNP_A-4263169 AB
SNP_A-1970786 AB

Total number of rows: 795734

Table truncated, full table size 13261 Kbytes.




Supplementary file Size Download File type/resource
GSM1633962_EMC_2909282_v1.CEL.gz 26.6 Mb (ftp)(http) CEL
Processed data included within Sample table

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