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Sample GSM3660624 Query DataSets for GSM3660624
Status Public on Aug 12, 2020
Title Adults B-cell ALL Bone marrow, sample 13, Relapse
Sample type genomic
 
Channel 1
Source name DNA from Bone marrow cells
Organism Homo sapiens
Characteristics patient id: ID13
disease state: Relapse
array id: 558871A10
gender: Female
disease: B-cell acute lymphoblastic leukemia
age group: Adults ≥18 years
Extracted molecule genomic DNA
Extraction protocol The genomic DNA was extracted from frozen bone marrow or fixed peripheral blood cell samples with QIAmp DNA Mini Kit (Qiagen, 16 Valencia, CA, USA) following the manufacturer’s instructions
Label Cy3
Label protocol Samples were denatured and labeled in parallel with Cy3 for the test group and Cy5 for the control group, each through a random priming method, using Klenow fragments (NimbleGen Dual-Color DNA Labeling Kit, Roche NimbleGen, Inc., Madison, WI, USA)
 
Channel 2
Source name genomic DNA
Organism Homo sapiens
Characteristics gender: Female
disease: Not applicable
age group: Not applicable
Extracted molecule genomic DNA
Extraction protocol The genomic DNA was extracted from frozen bone marrow or fixed peripheral blood cell samples with QIAmp DNA Mini Kit (Qiagen, 16 Valencia, CA, USA) following the manufacturer’s instructions
Label Cy5
Label protocol Samples were denatured and labeled in parallel with Cy3 for the test group and Cy5 for the control group, each through a random priming method, using Klenow fragments (NimbleGen Dual-Color DNA Labeling Kit, Roche NimbleGen, Inc., Madison, WI, USA)
 
 
Hybridization protocol Hybridization was performed according to the instructions in the NimbleGen Array User Guide
Scan protocol Scanning was performed according to the instructions in the NimbleGen Array User Guide
Description Human Genomic DNA: Female, Promega, Madison, WI, USA
Data processing Arrays were processed using Nimblegen's standard protocol and segmented using the copynumber R package.
 
Submission date Mar 07, 2019
Last update date Aug 12, 2020
Contact name Jesús Maria Hernández-Rivas
E-mail(s) [email protected]
Organization name Hospital Universitario de Salamanca, Universidad de Salamanca-CSIC
Department Hematology
Street address Paseo San Vicente, 88-182
City Salamanca
State/province Salamanca
ZIP/Postal code 37007
Country Spain
 
Platform ID GPL10197
Series (1)
GSE128031 Integrated genomic analysis of chromosomal alterations and mutations in B-cell acute lymphoblastic leukemia reveals distinct genetic profiles at relapse

Data table header descriptions
ID_REF
VALUE Loess normalized ratios

Data table
ID_REF VALUE
CHR01FS000037196 0.0551
CHR01FS000052308 0.099
CHR01FS000357503 0.0166
CHR01FS000443361 0.308
CHR01FS000530358 -0.5597
CHR01FS000547649 0.0599
CHR01FS000560348 0.0809
CHR01FS000580411 0.0372
CHR01FS000614850 0.122
CHR01FS000722938 0.0856
CHR01FS000750232 0.0481
CHR01FS000782679 0.2077
CHR01FS001018317 -0.1623
CHR01FS001069258 -0.5669
CHR01FS001099612 -0.2645
CHR01FS001314689 0.0486
CHR01FS001315417 0.054
CHR01FS001400200 -0.2355
CHR01FS001457534 -0.0939
CHR01FS001489998 0.2946

Total number of rows: 134937

Table truncated, full table size 3205 Kbytes.




Supplementary file Size Download File type/resource
GSM3660624_13_31459_R_558871A10_532.pair.gz 2.6 Mb (ftp)(http) PAIR
GSM3660624_13_31459_R_558871A10_635.pair.gz 2.6 Mb (ftp)(http) PAIR
Processed data included within Sample table

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