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Sample GSM549158 Query DataSets for GSM549158
Status Public on Jan 26, 2011
Title WBC4
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 4
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 0.7907213 3.68E-38 24 22 39.19184 75.11768 518 2335
cg00002426 0.8732738 3.68E-38 10 19 15.81139 168.2332 212 2150
cg00003994 0.06526316 3.68E-38 14 22 110.9134 16.83746 1676 124
cg00005847 0.1146409 3.68E-38 17 17 117.6298 28.37667 2464 332
cg00006414 0.05142521 3.68E-38 18 13 119.501 17.20626 3128 175
cg00007981 0.03516326 3.68E-38 19 13 298.2404 21.10625 5278 196
cg00008493 0.982371 3.68E-38 14 17 18.70829 536.126 107 11535
cg00008713 0.02571842 3.68E-38 18 22 493.3248 31.1127 15394 409
cg00009407 0.005353319 3.68E-38 19 21 509.7617 7.570719 10119 55
cg00010193 0.5954819 3.68E-38 16 11 532.5 740 11038 16396
cg00011459 0.8193869 3.68E-38 14 24 9.888666 81.24742 118 989
cg00012199 0.007528231 3.68E-38 13 14 545.5477 13.86751 7810 60
cg00012386 0.01639344 3.68E-38 18 19 418.3715 20.9775 12140 204
cg00012792 0.01463019 3.68E-38 19 24 431.0722 34.64178 20577 307
cg00013618 0.8614588 3.68E-38 23 22 50.46049 204.7612 730 5161
cg00014085 0.01188433 3.68E-38 16 23 310 11 7383 90
cg00014837 0.8159952 3.68E-38 21 11 27.27724 57.3913 206 1357
cg00015770 0.08618487 3.68E-38 24 16 593.3889 58.17538 13493 1282
cg00016968 0.9136168 3.68E-38 17 12 70.8204 800.6101 1269 14479
cg00019495 0.2309403 3.68E-38 13 18 116.487 71.27898 2321 727

Total number of rows: 27578

Table truncated, full table size 1688 Kbytes.




Supplementary data files not provided
Processed data included within Sample table

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