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Sample GSM1322753 Query DataSets for GSM1322753
Status Public on Jun 03, 2015
Title NB3
Sample type genomic
 
Source name Neuroblastoma
Organism Homo sapiens
Characteristics tissue type: Neuroblastoma
tissue group: tumoral tissue
tumor stage (inss classification): Stage 4s
mycn status: non-amplified
age at diagnosis (months): <18m
Extracted molecule genomic DNA
Extraction protocol Genomic DNA was isolated from snap-frozen samples using Wizard DNA Purification Kit from Promega following manufacturers’ protocols.
Label Cy5 and Cy3
Label protocol Standard Illumina Protocol.
 
Hybridization protocol Bisulphite converted DNA was amplified, fragmented and hybridised to Illumina Infinium HumanMethylation450K BeadChip using standard Illumina protocol.
Scan protocol Arrays were imaged using BeadArray Reader using standard recommended Illumina scanner setting.
Description HSJD12_3
Data processing GenomeStudio (Illumina) and R Package (Du P et al. Bioinformatics 2008) version 3.0.1; available through Bioconductor (www.bioconductor.org). The non_normalized_*.txt contains unmethylated and methylated signal intensities
 
Submission date Feb 06, 2014
Last update date Jun 03, 2015
Contact name Cinzia Lavarino
E-mail(s) clavarino@fsjd.org
Phone +34932804000
Organization name Hospital Sant Joan de Déu
Department Oncology
Lab Oncology
Street address Santa Rosa 39-57
City Esplugues de Llobregat
State/province Barcelona
ZIP/Postal code 08950
Country Spain
 
Platform ID GPL13534
Series (2)
GSE54719 DNA methylation changes at CpG and non-CpG sites are associated with development and clinical behavior in neuroblastoma [methylation]
GSE54721 DNA methylation changes at CpG and non-CpG sites are associated with development and clinical behavior in neuroblastoma.

Data table header descriptions
ID_REF
VALUE Average Beta
DetectionPval

Data table
ID_REF VALUE DetectionPval
cg00050873 0.473792394655704 0.546466472915313
cg00212031 0.391801715919924 0.367965965411845
cg00213748 0.362173038229376 0.468983289011412
cg00214611 0.472852912142152 0.474144772444887
cg00455876 0.28173828125 4.92849505651094e-09
cg01707559 0.256376594148537 0
cg02004872 0.14672930972172 0
cg02011394 0.293706293706294 0.00737329156251476
cg02050847 0.351778656126482 0.584078980879413
cg02233190 0.254493170381021 0.0341045310405153
cg02494853 0.0330046984518216 0
cg02839557 0.347692307692308 0.0434327779960231
cg02842889 0.484990619136961 0.524898894819111
cg03052502 0.487554904831625 0.0300001406636073
cg03155755 0.497478991596639 0.165320587361184
cg03244189 0.33259587020649 0
cg03443143 0.560299625468165 0.0458760524131245
cg03683899 0.449899799599198 0.641408618027176
cg03695421 0.204125483455092 4.17699208554723e-12
cg03706273 0.034651075470686 0

Total number of rows: 485512

Table truncated, full table size 14789 Kbytes.




Supplementary data files not provided
Processed data included within Sample table

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