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Sample GSM6209613 Query DataSets for GSM6209613
Status Public on Aug 17, 2022
Title CTH+10
Sample type genomic
 
Source name Unsorted Bone Marrow Cells
Organism Homo sapiens
Characteristics cell type: T-ALL
chromothripsis status: positive
subtype: immature
age: 24
Extracted molecule genomic DNA
Extraction protocol DNA were extracted from bone marrow 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, ligated, 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
Data processing Protocol was supported by Affymetrix GeneChip Command Console (AGCC) software. Analysis was performed through Affymetrix Chromosome Analysis 4.0 (ChAS) software with filters set at 200 Kb for Copy Number Alterations (CNAs) and 10 Mb 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
 
Submission date Jun 01, 2022
Last update date Aug 17, 2022
Contact name Cristina Mecucci
E-mail(s) cristina.mecucci@unipg.it
Phone +39 075 5783808
Organization name University of Perugia
Department Department of Medicine, Hematology and Bone Marrow Transplantation Unit
Lab Laboratory of Cytogenetics and Molecular Genetics
Street address Piazzale Menghini n.9
City Perugia
ZIP/Postal code 06132
Country Italy
 
Platform ID GPL16131
Series (2)
GSE205269 Chromothripsis is a frequent event and underlies typical genetic changes in early T-cell precursor lymphoblastic leukemia in adults [SNP]
GSE205270 Chromothripsis is a frequent event and underlies typical genetic changes in early T-cell precursor lymphoblastic leukemia in adults

Supplementary file Size Download File type/resource
GSM6209613_CTH+10_CytoScanHD_Array_.CEL.gz 30.0 Mb (ftp)(http) CEL
GSM6209613_CTH+10_CytoScanHD_Array_.cyhd.cychp.gz 95.4 Mb (ftp)(http) CYCHP
Processed data provided as supplementary file

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