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Sample GSM549171 Query DataSets for GSM549171
Status Public on Jan 26, 2011
Title MCT
Sample type genomic
 
Source name Mature cystic ovarian teratoma
Organism Homo sapiens
Characteristics tissue: Mature cystic ovarian teratoma
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 Mature cystic ovarian teratoma
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 0.3918394 3.68E-38 15 12 116.7059 97.34098 1778 1210
cg00002426 0.3251455 3.68E-38 19 18 57.12452 30.51229 944 503
cg00003994 0.06571741 3.68E-38 9 8 67.66666 5.333333 753 60
cg00005847 0.2637102 3.68E-38 25 21 96 36.2 2075 779
cg00006414 0.0374426 3.68E-38 12 26 213.6196 12.70171 2625 106
cg00007981 0.04592457 3.68E-38 17 19 149.4019 22.55581 3037 151
cg00008493 0.9832665 3.68E-38 16 18 8.75 310.75 71 10048
cg00008713 0.02007229 3.68E-38 11 24 800.2111 43.11612 15083 311
cg00009407 0.008290027 3.68E-38 15 16 256.9079 7.229569 7915 67
cg00010193 0.620471 3.68E-38 12 20 822.1468 643.4568 9537 15755
cg00011459 0.7900102 3.68E-38 21 20 10.47446 57.82774 106 775
cg00012199 0.007865516 3.68E-38 22 15 307.6486 4.903616 6333 51
cg00012386 0.025861 3.68E-38 20 21 442.7415 30.18692 7735 208
cg00012792 0.01763166 3.68E-38 28 19 481.3378 19.84313 12659 229
cg00013618 0.8624458 3.68E-38 14 13 63.34092 168.1073 630 4577
cg00014085 0.0187659 3.68E-38 28 18 180.1001 8.504201 6070 118
cg00014837 0.735687 3.68E-38 16 11 27.75 22.25 177 771
cg00015770 0.06239987 3.68E-38 11 13 545.7355 39.7995 11605 779
cg00016968 0.6333699 3.68E-38 13 15 394.3918 679.5078 5923 10405
cg00019495 0.2940563 3.68E-38 20 15 90.11354 45.61579 1254 564

Total number of rows: 27578

Table truncated, full table size 1681 Kbytes.




Supplementary data files not provided
Processed data included within Sample table

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