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Sample GSM1148150 Query DataSets for GSM1148150
Status Public on May 24, 2016
Title DLBCL Patient No.24, lymph node sample
Sample type genomic
 
Source name lymph node 24, at diagnosis
Organism Homo sapiens
Characteristics tumor: Diffuse large B cell lymphoma
Sex: Male
Extracted molecule genomic DNA
Extraction protocol Genomic DNA was extracted using Wizard Genomic DNA Purificaiton Kit (Promega, WI, USA) according to the manufacturer's protocol.
Label C-Bio and A-DNP
Label protocol standard Illumina protocol
 
Hybridization protocol standard Illumina protocol
Scan protocol standard Illumina protocol
Description Genomic DNA extracted from lymph node tissue was genotyped using Human610W-Quad v1.0 Genotyping BeadChips (Illumina).
Data processing Regions were determined based on the Log R Ratio (LRR) of the signal intensity and B allele frequency (BAF) of genotyping call using platform of GenomeStudio V2011.1 with CnvPartition 3.1.6 (Illumina).
 
Submission date May 24, 2013
Last update date May 24, 2016
Contact name Fan YANG
E-mail(s) [email protected]
Organization name Shanghai Institute of Hematology
Street address 197, Rui Jin Er Road
City Shanghai
ZIP/Postal code 200025
Country China
 
Platform ID GPL8887
Series (1)
GSE47357 Normalization of whole-genome SNP data from non-Hodgkin lymphoma patients for copy number variation.

Data table header descriptions
ID_REF
VALUE Genotype: AA,AB,BB,or NC (no call)
GC_SCORE
Theta
R
B_Allele_Freq
Log_R_Ratio

Data table
ID_REF VALUE GC_SCORE Theta R B_Allele_Freq Log_R_Ratio
200003 AA 0.9299 0.027 1.069 0.0000 -0.0659
200006 BB 0.7493 0.930 1.473 0.9526 -0.1641
200047 AA 0.8612 0.071 0.579 0.0342 0.1592
200050 BB 0.8331 0.983 1.343 0.9904 0.1317
200052 BB 0.9466 0.994 0.856 1.0000 -0.1139
200053 AA 0.7494 0.087 1.203 0.0065 0.1213
200070 AB 0.9705 0.488 0.476 0.4894 -0.1325
200078 BB 0.6531 0.928 1.874 0.9851 -0.0152
200087 AA 0.9078 0.052 0.877 0.0136 -0.2459
200091 BB 0.8205 0.962 1.518 0.9930 -0.0828
200096 AA 0.9354 0.010 1.025 0.0000 -0.0923
200124 AB 0.8902 0.551 1.159 0.4423 0.2485
200199 AB 0.9599 0.483 0.825 0.4989 -0.0303
200240 AA 0.8783 0.039 1.275 0.0132 -0.0825
200251 AA 0.9410 0.014 0.821 0.0014 -0.2777
200258 AA 0.7452 0.047 1.538 0.0000 -0.1205
200260 BB 0.7948 0.996 1.164 0.9935 -0.1392
200261 AA 0.8794 0.049 1.209 0.0000 0.0312
200262 AB 0.9257 0.469 0.782 0.5101 0.0905
200519 BB 0.8717 0.991 1.614 1.0000 0.0570

Total number of rows: 465276

Table truncated, full table size 21275 Kbytes.




Supplementary data files not provided
Processed data included within Sample table

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