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Sample GSM471237

Query DataSets for GSM471237

Status

Public on Nov 24, 2010

Title

Normal blood DNA case 2

Sample type

genomic

Source name

Blood

Organism

Characteristics

gender: Male
tissue: Blood
disease state: normal

Extracted molecule

genomic DNA

Extraction protocol

DNA was extracted from blood sample using the DNeasy Kit including the optional RNaseH treatment, according to the manufacturer's instructions (Qiagen, Valencia, CA, USA).

Label

unlabeled

Label protocol

unlabeled

Hybridization protocol

Hybridization was done according to the Infinium HD Super Assay Manual EUC EUC 11294817 Rev A (Human CNV370-Quad v3.0) and Infinium HD Assay Gemini Manual EUC11311015 Rev A (Human1M-Duo v3.0) protocols.

Scan protocol

Scanning was done according to the Infinium HD Super Assay Manual EUC EUC 11294817 Rev A (Human CNV370-Quad v3.0) and Infinium HD Assay Gemini Manual EUC11311015 Rev A (Human1M-Duo v3.0) protocols.

Description

Genomic DNA extracted from normal blood were analyzed for DNA copy number aberrations using Illumina Human CNV370-Quad v3.0 BeadChips (Illumina). The results were compared to the DNA copy number aberrations found in the corresponding tumour samples, analyzed using the same platform.

Data processing

Genomic DNA extracted from hibernoma biopsies was analyzed for DNA copy number aberrations using Illumina Human1M-Duo v3.0 BeadChips (Illumina).

Submission date

Nov 16, 2009

Last update date

Nov 24, 2010

Contact name

Karolin H Nord

Organization name

Lund University

Department

Dept of Clinical Genetics

Street address

BMC C13

City

Lund

ZIP/Postal code

SE-22184

Country

Sweden

Platform ID

Series (1)

Concomitant deletions of tumor suppressor genes MEN1 and AIP are essential for the pathogenesis of the brown fat tumor hibernoma

Data table header descriptions
ID_REF
X Raw
Y Raw
X
Y
VALUE	B allele frequency
Log R Ratio

Data table
ID_REF	X Raw	Y Raw	X	Y	VALUE	Log R Ratio
rs12354060-128_T_F_1514243431	1177	15187	0.09839639	1.600828	1	0.0001953591
rs2691310-128_B_R_1514251078	8438	9644	0.8558494	1.014302	0.3433366	0.1972705
rs2531266-128_T_R_1514250574	6023	10670	0.6247771	1.098928	0.5190458	-0.1210026
rs4124251-128_B_F_1514285504	13093	475	1.349197	0.04620427	0	-0.01015841
rs8179466-128_B_F_1514290736	1410	12153	0.1266429	1.280861	1	-0.06108844
rs6603779-128_B_F_1514258763	15000	10263	1.532619	1.077688	0.640071	-0.1902263
cnvi0007379-126_B_F_1514269226	2800	17460	0.2628592	1.840024	1	-0.05196916
cnvi0019140-126_B_R_1525540355	9265	1053	0.953102	0.1082447	0	-0.1022757
cnvi0007389-126_T_R_1514269233	10528	630	1.084109	0.06328228	0.005235208	-0.1866353
cnvi0021559-126_T_F_1525544132	27049	4379	2.784975	0.453836	0	-0.2385503
cnvi0007392-126_B_F_1514269234	18569	1676	1.913018	0.1712664	0.007054292	0.1270839
cnvi0007380-126_B_F_1514269227	14249	261	1.468866	0.02330917	0	-0.06516877
cnvi0021553-126_T_R_1525544974	15460	394	1.593737	0.03698542	0	0.07575594
cnvi0007381-126_B_R_1514269228	15971	1238	1.645341	0.1258289	0.008961728	-0.02170256
cnvi0019138-126_B_R_1525543195	432	15461	0.01121956	1.600865	1	0.1368771
cnvi0021554-126_T_F_1525544906	14467	823	1.490603	0.08250304	0	0.0222386
cnvi0019139-126_B_R_1525539977	410	9541	0.02698177	1.005743	0.9966609	0.01730746
cnvi0023337-126_B_F_1525548141	582	12492	0.04067198	1.316842	1	0.0461813
cnvi0007382-126_T_R_1514269229	2840	13668	0.2722214	1.440191	0.9797928	-0.01166255
cnvi0007383-126_B_F_1514233811	13016	1048	1.340455	0.1066425	0.01124384	-0.2830526

Total number of rows: 373397

Table truncated, full table size 27862 Kbytes.

Supplementary data files not provided

Processed data included within Sample table

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