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Sample GSM549157 Query DataSets for GSM549157
Status Public on Jan 26, 2011
Title WBC3
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 3
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 0.8096665 3.68E-38 14 16 40.62371 80.98016 408 2161
cg00002426 0.8420644 3.68E-38 27 23 24.63361 124.7077 307 2170
cg00003994 0.09153634 3.68E-38 17 15 121.0253 26.92145 1875 199
cg00005847 0.09084249 3.68E-38 14 24 111.9825 23.78625 2382 248
cg00006414 0.02228826 3.68E-38 15 23 147.1734 9.036962 2532 60
cg00007981 0.02332675 3.68E-38 24 20 222.4953 12.24745 5343 130
cg00008493 0.9814848 3.68E-38 13 17 11.37135 507.828 105 10867
cg00008713 0.01993335 3.68E-38 15 25 525.4348 25.30349 15486 317
cg00009407 0.00553427 3.68E-38 18 19 588.5485 5.892557 9244 52
cg00010193 0.5675063 3.68E-38 22 22 240.7036 553.8954 10958 14510
cg00011459 0.8070444 3.68E-38 21 11 13.52951 75.28517 152 1054
cg00012199 0.007583821 3.68E-38 14 19 447.1281 9.354143 7359 57
cg00012386 0.01947715 3.68E-38 23 17 333.4146 17.72372 11227 225
cg00012792 0.01653981 3.68E-38 18 20 523.259 35.11964 20057 339
cg00013618 0.8542463 3.68E-38 15 19 51.38158 261.8137 777 5140
cg00014085 0.01120909 3.68E-38 15 18 280.1458 6.713171 6516 75
cg00014837 0.8099227 3.68E-38 25 26 20 49.6 195 1257
cg00015770 0.0796567 3.68E-38 15 22 486.7049 65.32432 13626 1188
cg00016968 0.8841166 3.68E-38 16 14 59.5 642.25 1562 12680
cg00019495 0.280209 3.68E-38 17 19 133.3946 40.01838 2104 858

Total number of rows: 27578

Table truncated, full table size 1687 Kbytes.




Supplementary data files not provided
Processed data included within Sample table

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