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Sample GSM1342568 Query DataSets for GSM1342568
Status Public on Jul 31, 2014
Title Saliva03
Sample type genomic
 
Source name Saliva
Organism Homo sapiens
Characteristics sample type: Saliva
Extracted molecule genomic DNA
Extraction protocol Genomic DNA (1 µg) from each sample was bisulfite converted using the EZ DNA methylation kit (Zymo Research), and 200 ng of the converted DNA was used for amplification.
Label Cy5 and Cy3
Label protocol standard Illumina protocol
 
Hybridization protocol Amplified DNA was hybridized on the Infinium HumanMethylation 450 BeadChip (Illumina), following the Illumina Infinium HD Methylation protocol.
Scan protocol The arrays were imaged using the Illumina HiScan SQ scanner, and image processing and extraction of intensity data were performed according to Illumina’s instructions.
Description Saliva
Sample9
Data processing Each methylation signal was used to compute the β value, which is a quantitative measure of DNA methylation ranging from 0 (for completely unmethylated cytosines) to 1 (for completely methylated cytosines) (Bibikova et al., 2006).
 
Submission date Mar 10, 2014
Last update date Jul 31, 2014
Contact name Jonglyul Park
E-mail(s) nlcguard@kribb.re.kr
Organization name Korea Research Institute of Bioscience and Biotechnology
Department Medical genomics
Street address 52, Eoeun-dong, Yuseong-gu
City daejeon
ZIP/Postal code 305-806
Country South Korea
 
Platform ID GPL13534
Series (1)
GSE55734 Genome-wide profiling and validation for forensic tissue-specific DNA methylation markers

Data table header descriptions
ID_REF
VALUE Beta
Detection Pval

Data table
ID_REF VALUE Detection Pval
cg00000029 0.4896236 0
cg00000108 0.9543487 0
cg00000109 0.9113069 0
cg00000165 0.3003953 0
cg00000236 0.7985337 0
cg00000289 0.7700297 0
cg00000292 0.8437229 0
cg00000321 0.4247033 0
cg00000363 0.447315 0
cg00000622 0.0130028 0
cg00000658 0.865059 0
cg00000714 0.1993021 0
cg00000721 0.9438708 0
cg00000734 0.1502683 0
cg00000769 0.08506171 0
cg00000807 0.8926517 0
cg00000884 0.8725907 0
cg00000905 0.1726407 0
cg00000924 0.76316 0
cg00000948 0.9000569 0

Total number of rows: 485577

Table truncated, full table size 10941 Kbytes.




Supplementary data files not provided
Processed data included within Sample table

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