cell type: Unsorted Bone Marrow Cells cytogenetics: 46,XY,t(5;12)(q31;p13)[10]/46,XY[1] age: 26
Treatment protocol
None
Growth protocol
None
Extracted molecule
genomic DNA
Extraction protocol
DNA were extracted from bone marrow cells or periferal blood cells of patients using All Prep DNA/RNA Mini Kit (Qiagen). DNA quality and quantity was assessed using a Nanodrop Spectrophotometer, Bioanalyzer and/or Tapestation visualization (Agilent 2100 Bioanalyzer) and agarose gel electrophoresis.
Label
Biotin
Label protocol
As per manufacturer (Affymetrix)
Hybridization protocol
DNA was restriction digested, PCR amplified, fragmented, labeled and hybridized to each array according to the manufacturer's instructions.
Scan protocol
The Arrays were then washed using Affymetrix fluidics stations, and scanned using the Gene Chip Scanner 3000 7G.
Description
Case_5 (UPN#605)
Data processing
Protocol was supported by Affymetrix GeneChip Command Console (AGCC) software. Analysis was performed through Affymetrix Chromosome Analysis (ChAS) software with filters set at 400 Kb dimension for Copy Number Alterations (CNAs) and 10 Mb dimensions for copy neutral loss of heterozygosity (cnLOH). Our data refer to NetAffx Build 32.3 (hg19) database. Genotype Call (SNP call): AA, AB, BB, NC, and NoCall; 'Signal' = Summarized signal LOG2 RATIO
