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Sample GSM5931217 Query DataSets for GSM5931217
Status Public on Sep 30, 2023
Title 2.5yo Male High hyperdiploid Acute Lymphoblastic Leukemia Patient_34
Sample type genomic
 
Source name WBC from Bone Marrow
Organism Homo sapiens
Characteristics subject id: Patient_34
disease: B-Cell Precursor Acute Lymphoblastic Leukemia (BCP-ALL)
age: 2.5yo
gender: Male
Treatment protocol treatment is according to IciCLe protocol of InPOG
Growth protocol DNA extracted from mononuclear cell from Bone Marrow in EB at -20C
Extracted molecule genomic DNA
Extraction protocol Genomic DNA was extracted from mononuclear cell preparations of leukemic blasts obtained from bone marrow at diagnosis using the Qiagen DNA Blood Mini Kit. DNA quality and quantity was assessed using a Nanodrop Spectrophotometer, Qubit 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.
Description hybridized to Affymetrix CytoScan HD
Data processing The array image was acquired using Affymetrix GeneChip® Operating Software (GCOS version 1.4). Copy number values for individual SNPs were extracted and converted from CEL files into signal intensities using ChAS v1.5.
Genotype Call (SNP call): AA, AB, BB, NC, and NoCall; 'Signal' = Summarized signal
 
Submission date Mar 03, 2022
Last update date Sep 30, 2023
Contact name Mayur Parihar
E-mail(s) mayur.parihar@ttcrc.tmckolkata.org
Organization name Tata Medical Center
Department Pathology
Lab Cytogenetics and Genomics
Street address 14 Major Arterial Road (E-W)
City Kolkata
State/province West Bengal
ZIP/Postal code 700160
Country India
 
Platform ID GPL16131
Series (1)
GSE197838 Affymetrix SNP array data for acute lymphoblastic leukemia samples

Supplementary file Size Download File type/resource
GSM5931217_34_CSHD.CEL.gz 23.6 Mb (ftp)(http) CEL
GSM5931217_34_CSHD.CYCHP.gz 91.5 Mb (ftp)(http) CYCHP
Processed data provided as supplementary file

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