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Sample GSM471233

Query DataSets for GSM471233

Status

Public on Nov 24, 2010

Title

Hibernoma case 2 (CNV370-Quad)

Sample type

genomic

Source name

Hibernoma

Organism

Characteristics

gender: Male
tissue: Hibernoma
disease state: soft tissue tumour

Extracted molecule

genomic DNA

Extraction protocol

DNA was extracted from fresh frozen tumour biopsies using the DNeasy Tissue 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 hibernoma biopsies were analyzed for DNA copy number aberrations using Illumina Human CNV370-Quad v3.0 BeadChips (Illumina).

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	1190	21752	0.07776965	1.607915	1	-0.01134617
rs2691310-128_B_R_1514251078	10399	12560	0.8718745	0.9271352	0.3012794	0.1413181
rs2531266-128_T_R_1514250574	9213	18444	0.6737093	1.348125	0.5755452	0.1091495
rs4124251-128_B_F_1514285504	14825	792	1.261168	0.05632589	0	-0.09304181
rs8179466-128_B_F_1514290736	1786	19231	0.131164	1.421402	1	0.08042704
rs6603779-128_B_F_1514258763	21145	14948	1.784897	1.102649	0.5862776	-0.04460222
cnvi0007379-126_B_F_1514269226	3210	25153	0.2463308	1.859244	1	-0.05012352
cnvi0019140-126_B_R_1525540355	11062	1557	0.9397861	0.1132907	0	-0.1135611
cnvi0007389-126_T_R_1514269233	12033	757	1.023341	0.05402351	0.001162723	-0.2774865
cnvi0021559-126_T_F_1525544132	30433	6596	2.584859	0.483987	0.01644793	-0.3163179
cnvi0007392-126_B_F_1514269234	23522	2427	2.000409	0.1763582	0.006031776	0.1897186
cnvi0007380-126_B_F_1514269227	16915	377	1.439656	0.02541844	1.923793E-05	-0.09161206
cnvi0021553-126_T_R_1525544974	19582	635	1.666603	0.04422661	0.001008299	0.1449409
cnvi0007381-126_B_R_1514269228	19092	1471	1.623989	0.106107	0.0007348135	-0.05555289
cnvi0019138-126_B_R_1525543195	522	22851	0.008072608	1.653379	1	0.1803938
cnvi0021554-126_T_F_1525544906	19074	1455	1.622472	0.1049255	0.00211198	0.1572229
cnvi0019139-126_B_R_1525539977	325	14381	0.01173163	1.062848	1	0.0746243
cnvi0023337-126_B_F_1525548141	664	16150	0.03877538	1.193648	1	-0.09328809
cnvi0007382-126_T_R_1514269229	3090	20600	0.2408361	1.522519	1	0.0306306
cnvi0007383-126_B_F_1514233811	18929	1744	1.609819	0.1263147	0.01043944	-0.02033705

Total number of rows: 373397

Table truncated, full table size 27932 Kbytes.

Supplementary data files not provided

Processed data included within Sample table

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