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Sample GSM1054411 Query DataSets for GSM1054411
Status Public on Dec 19, 2012
Title APL bone marrow
Sample type genomic
 
Channel 1
Source name APL patient bone marrow
Organism Homo sapiens
Characteristics disease state: variant acute promyelocytic leukemia
tissue: bone marrow
gender: male
age: 59 y
genotype: RARA rearrangement
Extracted molecule genomic DNA
Extraction protocol Genomic DNA was extracted using Qiagen kit according to the manufacturer's instructions. Reference DNA was purchased from Promega.
Label Cy5
Label protocol Patient DNA and reference DNA were labeled with Agilent Genomic labeling kit PLUS as recommended by the manufacture.
 
Channel 2
Source name Promega pooled male PB
Organism Homo sapiens
Characteristics tissue: peripheral blood
sample type: Promega reference
gender: male
Extracted molecule genomic DNA
Extraction protocol Genomic DNA was extracted using Qiagen kit according to the manufacturer's instructions. Reference DNA was purchased from Promega.
Label Cy3
Label protocol Patient DNA and reference DNA were labeled with Agilent Genomic labeling kit PLUS as recommended by the manufacture.
 
 
Hybridization protocol Hybridization was performed using the Agilent Human Genome Microarray Kit 244K in a hybridization oven set to 65°C for 40 hours.
Scan protocol The slide was scanned on an Agilent high-resolution C scanner.
Image was quantified using Agilent Feature Extraction Software (version 10.5.1.1).
Description A 59-year-old male was diagnosed with variant acute promyelocytic leukemia. This case had a novel RARA rearrangement.
Data processing Agilent Feature Extraction Software (v 10.5.1.1) was used for background subtraction and LOWESS normalization.
 
Submission date Dec 18, 2012
Last update date Dec 19, 2012
Contact name Eul-Ju Seo
E-mail(s) ejseo@amc.seoul.kr
Organization name Asan Medical Center
Department Laboratory Medicine
Lab Medical Genetic Center
Street address 88, Olympic-ro, 43-gil, Songpa-gu
City Seoul
ZIP/Postal code 138-736
Country South Korea
 
Platform ID GPL10123
Series (1)
GSE42984 Variant acute promyelocytic leukemia (APL) bone marrow aCGH

Data table header descriptions
ID_REF
VALUE normalized log10 ratio Cy5/Cy3

Data table
ID_REF VALUE
1 6.464565073e-002
2 0.000000000e+000
3 -2.247975768e-001
4 3.428297526e-001
5 4.461584156e-001
6 3.065167605e-001
7 -6.476535835e-001
8 0.000000000e+000
9 4.822352371e-001
10 0.000000000e+000
11 1.183466260e-001
12 4.027737284e-001
13 0.000000000e+000
14 0.000000000e+000
15 0.000000000e+000
16 2.084177807e-001
17 0.000000000e+000
18 0.000000000e+000
19 -2.466316078e-001
20 0.000000000e+000

Total number of rows: 180880

Table truncated, full table size 4215 Kbytes.




Supplementary file Size Download File type/resource
GSM1054411_APL_JJC_CGH.txt.gz 18.3 Mb (ftp)(http) TXT
Processed data included within Sample table
Processed data provided as supplementary file

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