NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM549164 Query DataSets for GSM549164
Status Public on Jan 26, 2011
Title WBC10
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 10
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 0.7464981 3.68E-38 14 20 80.7129 288.3749 1384 4370
cg00002426 0.8482049 3.68E-38 14 24 83.38551 498.9767 1050 6426
cg00003994 0.09232481 3.68E-38 21 17 523.723 112.6004 9692 996
cg00005847 0.1543399 3.68E-38 26 17 176.5045 36.4776 5697 1058
cg00006414 0.03664012 3.68E-38 19 23 318.6584 40.14775 6552 253
cg00007981 0.04613448 3.68E-38 16 31 1092.5 110.5 19604 953
cg00008493 0.9774331 3.68E-38 24 24 38.17122 426.6195 450 23822
cg00008713 0.04008901 3.68E-38 16 23 767.25 89.75 29232 1225
cg00009407 0.06004049 3.68E-38 14 21 612.83 152.3389 25434 1631
cg00010193 0.5737846 3.68E-38 12 18 721.3992 1057.994 21608 29224
cg00011459 0.8238176 3.82E-38 16 20 79.5 221 727 3867
cg00012199 0.01362071 3.68E-38 21 16 737.14 40.37031 18801 261
cg00012386 0.04264979 3.68E-38 18 16 1124.3 143.5427 25624 1146
cg00012792 0.02446177 3.68E-38 25 15 1748.4 61.6 41814 1051
cg00013618 0.7664773 3.68E-38 17 13 150.3721 318.4493 3847 12955
cg00014085 0.03223583 3.68E-38 22 22 394.8477 72.70145 18153 608
cg00014837 0.8025201 2.66E-36 16 22 97.25 356.25 809 3694
cg00015770 0.1713149 3.68E-38 16 15 786.75 257.5 30921 6413
cg00016968 0.8602422 3.68E-38 18 15 207.418 401.8723 4100 25852
cg00019495 0.247728 3.68E-38 20 17 412.3309 174.4133 7267 2426

Total number of rows: 27578

Table truncated, full table size 1715 Kbytes.




Supplementary data files not provided
Processed data included within Sample table

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap