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Sample GSM549160 Query DataSets for GSM549160
Status Public on Jan 26, 2011
Title WBC6
Sample type genomic
 
Source name White blood cells
Organism Homo sapiens
Characteristics tissue: White blood cells
Treatment protocol All samples were bisulfite modified using kits from Qiagen and Sigma
Growth protocol Placenta samples were stored in RNAlater prior to DNA extraction, WBC samples are collected in ACD tubes, AnCHMs and MCT DNA were extracted from snap frozen tissues.
Extracted molecule genomic DNA
Extraction protocol DNA extraction was performed using standard protocols.
Label Cy3, Cy5
Label protocol Standard Illumina protocol for DNA methylation.
 
Hybridization protocol Standard Illumina protocol for DNA methylation.
Scan protocol Standard Illumina protocol for DNA methylation using the Bead Array Scanner.
Description White blood cells 6
Data processing The data was generated using the BeadStudio 2.0 software provided by Illumina by following their analytical matrix. Average normalization was performed.
 
Submission date Jun 02, 2010
Last update date Jan 26, 2011
Contact name Rosanna Weksberg
Organization name The Hospital for Sick Children
Department Genetics and Genome Biology
Lab Weksberg Lab
Street address 555 University Ave.
City Toronto
State/province Ontario
ZIP/Postal code M5G 2L3
Country Canada
 
Platform ID GPL8490
Series (1)
GSE22091 A Novel Approach Identifies New Differentially Methylated Regions (DMRs) Associated with Imprinted Genes

Data table header descriptions
ID_REF
VALUE Methylation status of the interrogated CpG site is then calculated as the ratio of fluorescent signal from one allele relative to the sum of both methylated and unmethylated alleles. This value also known as the β value, ranges from 0 (unmethylated) to 1 (fully methylated).
Detection Pval
Avg_NBEADS_A
Avg_NBEADS_B
BEAD_STDERR_A
BEAD_STDERR_B
Signal_A
Signal_B

Data table
ID_REF VALUE Detection Pval Avg_NBEADS_A Avg_NBEADS_B BEAD_STDERR_A BEAD_STDERR_B Signal_A Signal_B
cg00000292 0.8301927 3.68E-38 21 13 53.6816 221.0547 684 3833
cg00002426 0.8711329 3.68E-38 23 17 34.61339 198.9227 454 3745
cg00003994 0.097964 3.68E-38 12 20 138.2754 57.15768 2957 332
cg00005847 0.08985571 3.68E-38 11 12 301.8129 21.4073 4063 411
cg00006414 0.04911917 3.68E-38 16 21 252.5 22.75 4488 237
cg00007981 0.05796785 3.68E-38 20 13 466.2202 72.67221 8513 530
cg00008493 0.9811918 3.68E-38 13 20 16.36366 781.8499 215 16433
cg00008713 0.02013989 3.68E-38 21 23 700.6976 28.80476 19653 406
cg00009407 0.007278326 3.68E-38 21 22 526.778 9.601587 14085 104
cg00010193 0.5826829 3.68E-38 21 27 878.7634 765.2902 15405 21649
cg00011459 0.7906383 3.68E-38 24 22 54.70527 92.87649 392 1858
cg00012199 0.005916637 3.68E-38 20 20 422.8405 6.484597 11157 67
cg00012386 0.0271172 3.68E-38 23 16 586.551 29.60905 15937 447
cg00012792 0.01777 3.68E-38 24 23 749.748 39.60008 29085 528
cg00013618 0.8633348 3.68E-38 16 23 84.25 410.75 1095 7549
cg00014085 0.01687399 3.68E-38 23 24 372.1982 11.67681 8989 156
cg00014837 0.8077718 3.68E-38 19 22 43.13016 167.0146 365 1954
cg00015770 0.0959041 3.68E-38 20 21 593.4525 129.2447 19810 2112
cg00016968 0.8896765 3.68E-38 15 15 87.78762 1011.623 2048 17322
cg00019495 0.3486301 3.68E-38 16 14 174.75 104 2753 1527

Total number of rows: 27578

Table truncated, full table size 1699 Kbytes.




Supplementary data files not provided
Processed data included within Sample table

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