title: MALT075_Mapping50K_Xba240

description:
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
MALT075_Mapping50K_Xba240
Clinical information of primary lymphoma samples subjected to SNP arrays analysis can be found in Supplementary Table 1 of the associated publication.


title: MALT084_Mapping50K_Xba240

status: Public on May 01 2009

type: genomic

city: Tokyo

first: Motohiro

last: Kato

address: 7-3-1, Hongo, Bunkyo-ku

country: Japan

institute: University of Tokyo

description:
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
MALT084_Mapping50K_Xba240
Clinical information of primary lymphoma samples subjected to SNP arrays analysis can be found in Supplementary Table 1 of the associated publication.

hyb_protocol: Affymetrix standard protocol

scan_protocol: Affymetrix standard protocol

data_processing: After appropriate normalization of mean array intensities, signal ratios between tumours and anonymous normal references were calculated in an allele-specific manner, and allele-specific copy numbers were inferred from the observed signal ratios based on the hidden Markov model using CNAG/AsCNAR 3.0 software (http://www.genome.umin.jp).

label: biotin

molecule: genomic DNA

organism: Homo sapiens

source_name: lymphoma primary specimen

label_protocol: Affymetrix standard protocol

extract_protocol: standard DNA extraction using PUREGENE DNA extracting kit (Gentra, USA)

tag: disease state

value: non-Hodgkin's lymphoma (NHL), Primary


title: MALT074_Mapping50K_Xba240

description:
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
MALT074_Mapping50K_Xba240
Clinical information of primary lymphoma samples subjected to SNP arrays analysis can be found in Supplementary Table 1 of the associated publication.


title: DLBCL021_Mapping250K_Nsp

description:
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
DLBCL021_Mapping250K_Nsp
Clinical information of primary lymphoma samples subjected to SNP arrays analysis can be found in Supplementary Table 1 of the associated publication.


title: MALT056_Mapping50K_Xba240

description:
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
MALT056_Mapping50K_Xba240
Clinical information of primary lymphoma samples subjected to SNP arrays analysis can be found in Supplementary Table 1 of the associated publication.


title: MALT072_Mapping50K_Xba240

description:
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
MALT072_Mapping50K_Xba240
Clinical information of primary lymphoma samples subjected to SNP arrays analysis can be found in Supplementary Table 1 of the associated publication.


title: MALT009_Mapping250K_Nsp

description:
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
MALT009_Mapping250K_Nsp
Clinical information of primary lymphoma samples subjected to SNP arrays analysis can be found in Supplementary Table 1 of the associated publication.


title: MALT071_Mapping50K_Xba240

description:
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
MALT071_Mapping50K_Xba240
Clinical information of primary lymphoma samples subjected to SNP arrays analysis can be found in Supplementary Table 1 of the associated publication.


title: MALT026_Mapping250K_Nsp

description:
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
MALT026_Mapping250K_Nsp
Clinical information of primary lymphoma samples subjected to SNP arrays analysis can be found in Supplementary Table 1 of the associated publication.


title: MALT022_Mapping250K_Nsp

description:
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
MALT022_Mapping250K_Nsp
Clinical information of primary lymphoma samples subjected to SNP arrays analysis can be found in Supplementary Table 1 of the associated publication.


title: 1905 vs 1904

status: Public on Oct 06 2009

type: RNA

city: PAMPLONA

first: David

last: Blanco

address: Avda Pio XII, 55

department: Area Oncology

country: Spain

institute: CIMA

description: The general reproducibility of the hybridization platform (labeling procedure, hybridization and detection) was assessed by means of self to self hybridization.

hyb_protocol: Arrays were hybridized during 17h at 60ºC employing Agilent gaskets and hybridization chambers in an Agilent Hybridization Oven (G2545A).

scan_protocol: Raw data were acquired using an Agilent DNA Microarray Scanner and Agilent Feature Extraction Software (v.9.1).

data_processing: For data processing, a novel algorithm that distinguished between changes in gene expression and splicing variation was developed.

molecule: polyA RNA

source_name: Paired normal tissue

label_protocol: First-strand cDNA synthesis employing a chimeric primer including the T7 promoter sequences and a stretch of 6 random bases. Second-strand cDNA synthesis and in vitro transcription using the T7 RNA polymerase in the presence of a labeled ribonucleotide (Cy3- or Cy5-CTP).

extract_protocol: PolyA+ RNA was extracted using Dynabead magnetic particles.

tag: tissue

value: normal lung

tag: patient

value: diagnostic NSCLC

source_name: Paired tumor tissue

value: lung tumor


title: MALT005_Mapping250K_Nsp

description:
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
MALT005_Mapping250K_Nsp
Clinical information of primary lymphoma samples subjected to SNP arrays analysis can be found in Supplementary Table 1 of the associated publication.


title: MALT065_Mapping50K_Xba240

description:
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
MALT065_Mapping50K_Xba240
Clinical information of primary lymphoma samples subjected to SNP arrays analysis can be found in Supplementary Table 1 of the associated publication.


title: MALT086_Mapping50K_Xba240

description:
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
MALT086_Mapping50K_Xba240
Clinical information of primary lymphoma samples subjected to SNP arrays analysis can be found in Supplementary Table 1 of the associated publication.


title: MALT060_Mapping50K_Xba240

description:
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
MALT060_Mapping50K_Xba240
Clinical information of primary lymphoma samples subjected to SNP arrays analysis can be found in Supplementary Table 1 of the associated publication.


title: MALT006_Mapping250K_Nsp

description:
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
MALT006_Mapping250K_Nsp
Clinical information of primary lymphoma samples subjected to SNP arrays analysis can be found in Supplementary Table 1 of the associated publication.


title: MALT024_Mapping250K_Nsp

description:
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
MALT024_Mapping250K_Nsp
Clinical information of primary lymphoma samples subjected to SNP arrays analysis can be found in Supplementary Table 1 of the associated publication.


title: FL010_Mapping250K_Nsp

description:
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
FL010_Mapping250K_Nsp
Clinical information of primary lymphoma samples subjected to SNP arrays analysis can be found in Supplementary Table 1 of the associated publication.


title: FL011_Mapping250K_Nsp

description:
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
FL011_Mapping250K_Nsp
Clinical information of primary lymphoma samples subjected to SNP arrays analysis can be found in Supplementary Table 1 of the associated publication.


title: MALT051_Mapping50K_Xba240

description:
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
MALT051_Mapping50K_Xba240
Clinical information of primary lymphoma samples subjected to SNP arrays analysis can be found in Supplementary Table 1 of the associated publication.


title: MALT017_Mapping250K_Nsp

description:
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
MALT017_Mapping250K_Nsp
Clinical information of primary lymphoma samples subjected to SNP arrays analysis can be found in Supplementary Table 1 of the associated publication.


title: MALT058_Mapping50K_Xba240

description:
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
MALT058_Mapping50K_Xba240
Clinical information of primary lymphoma samples subjected to SNP arrays analysis can be found in Supplementary Table 1 of the associated publication.


title: MALT016_Mapping250K_Nsp

description:
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
MALT016_Mapping250K_Nsp
Clinical information of primary lymphoma samples subjected to SNP arrays analysis can be found in Supplementary Table 1 of the associated publication.


title: MALT021_Mapping250K_Nsp

description:
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
MALT021_Mapping250K_Nsp
Clinical information of primary lymphoma samples subjected to SNP arrays analysis can be found in Supplementary Table 1 of the associated publication.


title: MALT083_Mapping50K_Xba240

description:
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
MALT083_Mapping50K_Xba240
Clinical information of primary lymphoma samples subjected to SNP arrays analysis can be found in Supplementary Table 1 of the associated publication.


title: FL008_Mapping250K_Nsp

description:
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
FL008_Mapping250K_Nsp
Clinical information of primary lymphoma samples subjected to SNP arrays analysis can be found in Supplementary Table 1 of the associated publication.


title: FL009_Mapping250K_Nsp

description:
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
FL009_Mapping250K_Nsp
Clinical information of primary lymphoma samples subjected to SNP arrays analysis can be found in Supplementary Table 1 of the associated publication.


title: MALT070_Mapping50K_Xba240

description:
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
MALT070_Mapping50K_Xba240
Clinical information of primary lymphoma samples subjected to SNP arrays analysis can be found in Supplementary Table 1 of the associated publication.


title: MALT018_Mapping250K_Nsp

description:
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
MALT018_Mapping250K_Nsp
Clinical information of primary lymphoma samples subjected to SNP arrays analysis can be found in Supplementary Table 1 of the associated publication.


title: MALT061_Mapping50K_Xba240

description:
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
MALT061_Mapping50K_Xba240
Clinical information of primary lymphoma samples subjected to SNP arrays analysis can be found in Supplementary Table 1 of the associated publication.


title: MALT053_Mapping50K_Xba240

description:
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
MALT053_Mapping50K_Xba240
Clinical information of primary lymphoma samples subjected to SNP arrays analysis can be found in Supplementary Table 1 of the associated publication.


title: MALT025_Mapping250K_Nsp

description:
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
MALT025_Mapping250K_Nsp
Clinical information of primary lymphoma samples subjected to SNP arrays analysis can be found in Supplementary Table 1 of the associated publication.


title: MALT067_Mapping50K_Xba240

description:
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
MALT067_Mapping50K_Xba240
Clinical information of primary lymphoma samples subjected to SNP arrays analysis can be found in Supplementary Table 1 of the associated publication.


title: MALT055_Mapping50K_Xba240

description:
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
MALT055_Mapping50K_Xba240
Clinical information of primary lymphoma samples subjected to SNP arrays analysis can be found in Supplementary Table 1 of the associated publication.


title: FL007_Mapping250K_Nsp

description:
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
FL007_Mapping250K_Nsp
Clinical information of primary lymphoma samples subjected to SNP arrays analysis can be found in Supplementary Table 1 of the associated publication.


title: MALT085_Mapping50K_Xba240

description:
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
MALT085_Mapping50K_Xba240
Clinical information of primary lymphoma samples subjected to SNP arrays analysis can be found in Supplementary Table 1 of the associated publication.


title: FL005_Mapping250K_Nsp

description:
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
FL005_Mapping250K_Nsp
Clinical information of primary lymphoma samples subjected to SNP arrays analysis can be found in Supplementary Table 1 of the associated publication.


title: MALT064_Mapping50K_Xba240

description:
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
MALT064_Mapping50K_Xba240
Clinical information of primary lymphoma samples subjected to SNP arrays analysis can be found in Supplementary Table 1 of the associated publication.


title: MALT059_Mapping50K_Xba240

description:
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
MALT059_Mapping50K_Xba240
Clinical information of primary lymphoma samples subjected to SNP arrays analysis can be found in Supplementary Table 1 of the associated publication.


title: DLBCL022_Mapping250K_Nsp

description:
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
DLBCL022_Mapping250K_Nsp
Clinical information of primary lymphoma samples subjected to SNP arrays analysis can be found in Supplementary Table 1 of the associated publication.


title: FL003_Mapping250K_Nsp

description:
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
FL003_Mapping250K_Nsp
Clinical information of primary lymphoma samples subjected to SNP arrays analysis can be found in Supplementary Table 1 of the associated publication.


title: FL001_Mapping250K_Nsp

description:
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
FL001_Mapping250K_Nsp
Clinical information of primary lymphoma samples subjected to SNP arrays analysis can be found in Supplementary Table 1 of the associated publication.


title: MALT087_Mapping50K_Xba240

description:
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
MALT087_Mapping50K_Xba240
Clinical information of primary lymphoma samples subjected to SNP arrays analysis can be found in Supplementary Table 1 of the associated publication.


title: MALT068_Mapping50K_Xba240

description:
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
MALT068_Mapping50K_Xba240
Clinical information of primary lymphoma samples subjected to SNP arrays analysis can be found in Supplementary Table 1 of the associated publication.


title: MALT019_Mapping250K_Nsp

description:
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
MALT019_Mapping250K_Nsp
Clinical information of primary lymphoma samples subjected to SNP arrays analysis can be found in Supplementary Table 1 of the associated publication.


title: FL002_Mapping250K_Nsp

description:
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
FL002_Mapping250K_Nsp
Clinical information of primary lymphoma samples subjected to SNP arrays analysis can be found in Supplementary Table 1 of the associated publication.


title: MALT063_Mapping50K_Xba240

description:
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
MALT063_Mapping50K_Xba240
Clinical information of primary lymphoma samples subjected to SNP arrays analysis can be found in Supplementary Table 1 of the associated publication.


title: MALT066_Mapping50K_Xba240

description:
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
MALT066_Mapping50K_Xba240
Clinical information of primary lymphoma samples subjected to SNP arrays analysis can be found in Supplementary Table 1 of the associated publication.


title: DLBCL008_Mapping250K_Nsp

description:
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
DLBCL008_Mapping250K_Nsp
Clinical information of primary lymphoma samples subjected to SNP arrays analysis can be found in Supplementary Table 1 of the associated publication.


title: MALT069_Mapping50K_Xba240

description:
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
MALT069_Mapping50K_Xba240
Clinical information of primary lymphoma samples subjected to SNP arrays analysis can be found in Supplementary Table 1 of the associated publication.


title: MALT057_Mapping50K_Xba240

description:
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
MALT057_Mapping50K_Xba240
Clinical information of primary lymphoma samples subjected to SNP arrays analysis can be found in Supplementary Table 1 of the associated publication.


title: DLBCL010_Mapping250K_Nsp

description:
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
DLBCL010_Mapping250K_Nsp
Clinical information of primary lymphoma samples subjected to SNP arrays analysis can be found in Supplementary Table 1 of the associated publication.


title: MALT082_Mapping50K_Xba240

description:
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
MALT082_Mapping50K_Xba240
Clinical information of primary lymphoma samples subjected to SNP arrays analysis can be found in Supplementary Table 1 of the associated publication.


title: FL004_Mapping250K_Nsp

description:
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
FL004_Mapping250K_Nsp
Clinical information of primary lymphoma samples subjected to SNP arrays analysis can be found in Supplementary Table 1 of the associated publication.


title: DLBCL009_Mapping250K_Nsp

description:
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
DLBCL009_Mapping250K_Nsp
Clinical information of primary lymphoma samples subjected to SNP arrays analysis can be found in Supplementary Table 1 of the associated publication.


title: FL006_Mapping250K_Nsp

description:
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
FL006_Mapping250K_Nsp
Clinical information of primary lymphoma samples subjected to SNP arrays analysis can be found in Supplementary Table 1 of the associated publication.


title: DLBCL006_Mapping250K_Nsp

description:
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
DLBCL006_Mapping250K_Nsp
Clinical information of primary lymphoma samples subjected to SNP arrays analysis can be found in Supplementary Table 1 of the associated publication.


title: DLBCL007_Mapping250K_Nsp

description:
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
DLBCL007_Mapping250K_Nsp
Clinical information of primary lymphoma samples subjected to SNP arrays analysis can be found in Supplementary Table 1 of the associated publication.


title: DLBCL004_Mapping250K_Nsp

description:
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
DLBCL004_Mapping250K_Nsp
Clinical information of primary lymphoma samples subjected to SNP arrays analysis can be found in Supplementary Table 1 of the associated publication.


title: DLBCL023_Mapping250K_Sty

description:
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
DLBCL023_Mapping250K_Sty
Clinical information of primary lymphoma samples subjected to SNP arrays analysis can be found in Supplementary Table 1 of the associated publication.


title: FL052_Mapping250K_Sty

description:
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
FL052_Mapping250K_Sty
Clinical information of primary lymphoma samples subjected to SNP arrays analysis can be found in Supplementary Table 1 of the associated publication.


title: DLBCL011_Mapping250K_Nsp

description:
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
DLBCL011_Mapping250K_Nsp
Clinical information of primary lymphoma samples subjected to SNP arrays analysis can be found in Supplementary Table 1 of the associated publication.


title: DLBCL005_Mapping250K_Nsp

description:
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
DLBCL005_Mapping250K_Nsp
Clinical information of primary lymphoma samples subjected to SNP arrays analysis can be found in Supplementary Table 1 of the associated publication.


title: DLBCL060_Mapping250K_Sty

description:
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
DLBCL060_Mapping250K_Sty
Clinical information of primary lymphoma samples subjected to SNP arrays analysis can be found in Supplementary Table 1 of the associated publication.


title: DLBCL061_Mapping250K_Sty

description:
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
DLBCL061_Mapping250K_Sty
Clinical information of primary lymphoma samples subjected to SNP arrays analysis can be found in Supplementary Table 1 of the associated publication.


title: FL050_Mapping250K_Nsp

description:
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
FL050_Mapping250K_Nsp
Clinical information of primary lymphoma samples subjected to SNP arrays analysis can be found in Supplementary Table 1 of the associated publication.


title: DLBCL032_Mapping250K_Sty

description:
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
DLBCL032_Mapping250K_Sty
Clinical information of primary lymphoma samples subjected to SNP arrays analysis can be found in Supplementary Table 1 of the associated publication.


title: FL049_Mapping250K_Nsp

description:
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
FL049_Mapping250K_Nsp
Clinical information of primary lymphoma samples subjected to SNP arrays analysis can be found in Supplementary Table 1 of the associated publication.


title: FL023_Mapping250K_Nsp

description:
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
FL023_Mapping250K_Nsp
Clinical information of primary lymphoma samples subjected to SNP arrays analysis can be found in Supplementary Table 1 of the associated publication.


title: DLBCL001_Mapping250K_Nsp

description:
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
DLBCL001_Mapping250K_Nsp
Clinical information of primary lymphoma samples subjected to SNP arrays analysis can be found in Supplementary Table 1 of the associated publication.


title: DLBCL002_Mapping250K_Nsp

description:
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
DLBCL002_Mapping250K_Nsp
Clinical information of primary lymphoma samples subjected to SNP arrays analysis can be found in Supplementary Table 1 of the associated publication.


title: DLBCL027_Mapping250K_Sty

description:
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
DLBCL027_Mapping250K_Sty
Clinical information of primary lymphoma samples subjected to SNP arrays analysis can be found in Supplementary Table 1 of the associated publication.


title: FL034_Mapping250K_Sty

description:
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
FL034_Mapping250K_Sty
Clinical information of primary lymphoma samples subjected to SNP arrays analysis can be found in Supplementary Table 1 of the associated publication.


title: FL035_Mapping250K_Sty

description:
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
FL035_Mapping250K_Sty
Clinical information of primary lymphoma samples subjected to SNP arrays analysis can be found in Supplementary Table 1 of the associated publication.


title: FL036_Mapping250K_Sty

description:
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
FL036_Mapping250K_Sty
Clinical information of primary lymphoma samples subjected to SNP arrays analysis can be found in Supplementary Table 1 of the associated publication.


title: FL025_Mapping250K_Nsp

description:
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
FL025_Mapping250K_Nsp
Clinical information of primary lymphoma samples subjected to SNP arrays analysis can be found in Supplementary Table 1 of the associated publication.


title: FL024_Mapping250K_Nsp

description:
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
FL024_Mapping250K_Nsp
Clinical information of primary lymphoma samples subjected to SNP arrays analysis can be found in Supplementary Table 1 of the associated publication.


title: DLBCL029_Mapping250K_Sty

description:
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
DLBCL029_Mapping250K_Sty
Clinical information of primary lymphoma samples subjected to SNP arrays analysis can be found in Supplementary Table 1 of the associated publication.


title: MALT015_Mapping250K_Nsp

description:
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
MALT015_Mapping250K_Nsp
Clinical information of primary lymphoma samples subjected to SNP arrays analysis can be found in Supplementary Table 1 of the associated publication.


title: MALT020_Mapping250K_Nsp

description:
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
MALT020_Mapping250K_Nsp
Clinical information of primary lymphoma samples subjected to SNP arrays analysis can be found in Supplementary Table 1 of the associated publication.


title: FL032_Mapping250K_Sty

description:
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
FL032_Mapping250K_Sty
Clinical information of primary lymphoma samples subjected to SNP arrays analysis can be found in Supplementary Table 1 of the associated publication.


title: MALT008_Mapping250K_Nsp

description:
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
MALT008_Mapping250K_Nsp
Clinical information of primary lymphoma samples subjected to SNP arrays analysis can be found in Supplementary Table 1 of the associated publication.


title: DLBCL031_Mapping250K_Sty

description:
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
DLBCL031_Mapping250K_Sty
Clinical information of primary lymphoma samples subjected to SNP arrays analysis can be found in Supplementary Table 1 of the associated publication.


title: DLBCL026_Mapping250K_Sty

description:
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
DLBCL026_Mapping250K_Sty
Clinical information of primary lymphoma samples subjected to SNP arrays analysis can be found in Supplementary Table 1 of the associated publication.


title: MALT028_Mapping250K_Nsp

description:
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
MALT028_Mapping250K_Nsp
Clinical information of primary lymphoma samples subjected to SNP arrays analysis can be found in Supplementary Table 1 of the associated publication.


title: MALT029_Mapping250K_Nsp

description:
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
MALT029_Mapping250K_Nsp
Clinical information of primary lymphoma samples subjected to SNP arrays analysis can be found in Supplementary Table 1 of the associated publication.


title: FL022_Mapping250K_Sty

description:
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
FL022_Mapping250K_Sty
Clinical information of primary lymphoma samples subjected to SNP arrays analysis can be found in Supplementary Table 1 of the associated publication.


title: FL030_Mapping250K_Sty

description:
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
FL030_Mapping250K_Sty
Clinical information of primary lymphoma samples subjected to SNP arrays analysis can be found in Supplementary Table 1 of the associated publication.


title: MALT007_Mapping250K_Nsp

description:
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
MALT007_Mapping250K_Nsp
Clinical information of primary lymphoma samples subjected to SNP arrays analysis can be found in Supplementary Table 1 of the associated publication.


title: DLBCL025_Mapping250K_Sty

description:
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
DLBCL025_Mapping250K_Sty
Clinical information of primary lymphoma samples subjected to SNP arrays analysis can be found in Supplementary Table 1 of the associated publication.


title: MALT032_Mapping250K_Nsp

description:
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
MALT032_Mapping250K_Nsp
Clinical information of primary lymphoma samples subjected to SNP arrays analysis can be found in Supplementary Table 1 of the associated publication.


title: MALT027_Mapping250K_Nsp

description:
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
MALT027_Mapping250K_Nsp
Clinical information of primary lymphoma samples subjected to SNP arrays analysis can be found in Supplementary Table 1 of the associated publication.


title: MALT010_Mapping250K_Nsp

description:
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
MALT010_Mapping250K_Nsp
Clinical information of primary lymphoma samples subjected to SNP arrays analysis can be found in Supplementary Table 1 of the associated publication.


title: FL031_Mapping250K_Sty

description:
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
FL031_Mapping250K_Sty
Clinical information of primary lymphoma samples subjected to SNP arrays analysis can be found in Supplementary Table 1 of the associated publication.


title: MALT023_Mapping250K_Nsp

description:
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
MALT023_Mapping250K_Nsp
Clinical information of primary lymphoma samples subjected to SNP arrays analysis can be found in Supplementary Table 1 of the associated publication.


title: MALT033_Mapping250K_Nsp

description:
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
MALT033_Mapping250K_Nsp
Clinical information of primary lymphoma samples subjected to SNP arrays analysis can be found in Supplementary Table 1 of the associated publication.


title: MALT014_Mapping250K_Nsp

description:
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
MALT014_Mapping250K_Nsp
Clinical information of primary lymphoma samples subjected to SNP arrays analysis can be found in Supplementary Table 1 of the associated publication.


title: MALT011_Mapping250K_Nsp

description:
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
MALT011_Mapping250K_Nsp
Clinical information of primary lymphoma samples subjected to SNP arrays analysis can be found in Supplementary Table 1 of the associated publication.


title: MALT030_Mapping250K_Nsp

description:
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
MALT030_Mapping250K_Nsp
Clinical information of primary lymphoma samples subjected to SNP arrays analysis can be found in Supplementary Table 1 of the associated publication.


title: MALT031_Mapping250K_Nsp

description:
We have used anonymous normal references (own-lab-generated) for SNP array analysis.
MALT031_Mapping250K_Nsp
Clinical information of primary lymphoma samples subjected to SNP arrays analysis can be found in Supplementary Table 1 of the associated publication.


title: Granulocytes UPN39

status: Public on Oct 01 2009

city: Ulm

first: Frank

last: Stegelmann

address: Albert-Einstein-Allee 23

department: Internal Medicine III

country: Germany

institute: University Hospital of Ulm

description: Hybridized to 250K_Nsp

hyb_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.

data_processing: CEL files and CHP files (generated by Affymetrix GTYPE) were processed by Copy Number Analyzer for GeneChip (CNAG) version 2.0 software. Normalization was performed against an own set of 30 Sty and 30 Nsp reference samples, respectively. In one case (UPN23) dermal cells were used for paired tumor-germline analysis (UPN23_2).

label: Biotin

source_name: peripheral blood

label_protocol: As per manufacturer (Affymetrix)

extract_protocol: Genomic DNA was extracted from granulocyte preparations obtained from peripheral blood using DNAzol reagent. DNA quality and quantity was assessed using a Nanodrop Spectrophotometer.

tag: cell type

value: granulocytes

tag: diagnosis

value: polycythemia vera