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Sample GSM549169 Query DataSets for GSM549169
Status Public on Jan 26, 2011
Title WBC15
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 15
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 0.7116424 3.68E-38 22 17 133.6768 133.2504 913 2500
cg00002426 0.6030962 3.68E-38 20 16 141.5431 152.2762 1105 1831
cg00003994 0.2641509 3.44E-32 17 14 192.5733 66.6973 1889 714
cg00005847 0.203116 6.41E-08 19 14 90.84863 45.1949 1281 352
cg00006414 0.1807101 1.41E-10 11 20 126.6348 62.11134 1446 341
cg00007981 0.1457002 3.68E-38 25 19 324.4 109.6 4579 798
cg00008493 0.9684968 3.68E-38 11 20 50.95542 676.8929 281 11713
cg00008713 0.03363032 3.68E-38 20 23 687.3673 50.53514 15302 536
cg00009407 0.03053691 3.68E-38 18 21 391.2657 44.54773 8567 273
cg00010193 0.602443 3.68E-38 24 16 497.8588 408.8607 8069 12379
cg00011459 0.6284772 1.78E-15 11 24 99.80025 181.5098 688 1333
cg00012199 0.03153153 3.68E-38 11 16 448.9504 35.27683 5705 189
cg00012386 0.07483748 3.68E-38 22 23 410.8378 104.6815 11570 944
cg00012792 0.05036882 3.68E-38 25 19 965.2 110 21657 1154
cg00013618 0.7783388 3.68E-38 15 23 77.71786 196.4893 778 3083
cg00014085 0.09946076 3.68E-38 19 17 194.774 35.55944 4409 498
cg00014837 0.748994 1.45E-12 9 20 66 161 399 1489
cg00015770 0.1028268 3.68E-38 16 15 653 75.5 12246 1415
cg00016968 0.9227667 3.68E-38 9 15 16.33333 810.3333 800 10753
cg00019495 0.5063437 8.60E-29 15 26 57.57835 139.4274 1184 1317

Total number of rows: 27578

Table truncated, full table size 1691 Kbytes.




Supplementary data files not provided
Processed data included within Sample table

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