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Sample GSM1269777 Query DataSets for GSM1269777
Status Public on Nov 21, 2013
Title PNET 1
Sample type genomic
 
Source name PNET sample
Organism Homo sapiens
Characteristics tissue: Primitive neuroectodermal tumor (PNET)
disease state: PNET
Extracted molecule genomic DNA
Extraction protocol genomic DNA was extracted and purified from LBC samples using Qiagen DNeasy Kit according to standard instructions
Label Cy5 and Cy3
Label protocol Standard Illumina Protocol
 
Hybridization protocol bisulphite converted DNA was amplified, fragmented and hybridised to Illumina Infinium Human Methylation450k Beadchip using standard Illumina protocol
Scan protocol Arrays were imaged using BeadArray Reader using standard recommended Illumina scanner setting
Description pnet tumour sample
6969568009_R02C01
Data processing We removed probes with missing values, binding multiple genomic regions, binding targets with known sequence variants (1000 Genomes Project, SNPs with a minor allele frequency ≥ 2/120), or being located on the X or Y chromosomes. The final set contains 309,015 probes
 
Submission date Nov 20, 2013
Last update date Nov 21, 2013
Contact name Simon Papillon-Cavanagh
Organization name McGill University
Department Human Genetics
Lab Majewski
Street address 740 Dr Penfield
City Montrea
State/province Quebec
ZIP/Postal code H3A0G1
Country Canada
 
Platform ID GPL13534
Series (1)
GSE52556 Genome wide methylation profliling of ETMR tumours.

Data table header descriptions
ID_REF
VALUE Average Beta
Detection Pval

Data table
ID_REF VALUE Detection Pval
cg00050873 0.64862518089725 0
cg00212031 0.470643939393939 0.787607520880388
cg00213748 0.552767052767053 0.135302964549388
cg00214611 0.640939597315436 0.657148940957803
cg00455876 0.224285714285714 2.36366481942696e-12
cg01707559 0.367709540363075 0
cg02004872 0.280724450194049 0.000322287152876632
cg02011394 0.803058560238717 3.6937120029279e-13
cg02050847 0.588041689522765 0.100351960209301
cg02233190 0.324586977648202 0.00987771569175333
cg02494853 0.0220071606535537 0
cg02839557 0.367400881057269 0.681587828827964
cg02842889 0.621700879765396 0.646883956626928
cg03052502 0.745185185185185 0.000404100439637456
cg03155755 0.56728688879273 7.52407546567024e-06
cg03244189 0.439858490566038 2.70665847378337e-05
cg03443143 0.698179495368892 0
cg03683899 0.366895499618612 0.668739496715956
cg03695421 0.45021645021645 2.94484167765452e-05
cg03706273 0.0230880812313643 0

Total number of rows: 485512

Table truncated, full table size 14800 Kbytes.




Supplementary file Size Download File type/resource
GSM1269777_6969568009_R02C01.txt.gz 9.6 Mb (ftp)(http) TXT
Processed data included within Sample table

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