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Status |
Public on Mar 06, 2013 |
Title |
Buccal cell 18m twin 1, B3006 |
Sample type |
genomic |
|
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Source name |
Buccal cheek swab, DZ, 18 months
|
Organism |
Homo sapiens |
Characteristics |
gender: male age: 18 months cell type: normal buccal cells monozygotic: 0 dizygotic: 1 monochorionic: 0 sibship: 14 twin: 1
|
Extracted molecule |
genomic DNA |
Extraction protocol |
gDNA was purified from buccal swabs using phenol chloroform extraction.
|
Label |
Cy5 and Cy3
|
Label protocol |
Bisulphite conversion was carried out using the Methyl Xceed bisulphite kit as per the manufacturer's instructions.
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Hybridization protocol |
Bisulphite-converted DNA was amplified, fragmented and hybridised to the Illumina Infinium Human Methylation27 BeadChip using the standard llumina protocol.
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Scan protocol |
Arrays were imaged using the BeadArray Reader using the standard recommended Illumina scanner setting.
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Description |
B3006.1_18m
|
Data processing |
Data were preprocessed using the Bioconductor Minfi package in R by the 'illumina' method and normalized to control probes. Subset quantile normalization was performed on type 1 and type 2 probes. Probes failing P detection cutoff of <0.01 were removed. Probes on the X and Y chromosomes have been removed from the processed data. Outlier samples were removed. Between-array quantile normalization was performed to arrive at the final data set of 330168 probes and 53 samples.
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Submission date |
Dec 03, 2012 |
Last update date |
Mar 06, 2013 |
Contact name |
David Martino |
E-mail(s) |
david.martino@telethonkids.org.au
|
Phone |
0863191635
|
Organization name |
Telethon Kids Institute
|
Street address |
Perth Childrens Hospital, 15 Hospital Avenue
|
City |
NEDLANDS |
State/province |
Western Australia |
ZIP/Postal code |
6009 |
Country |
Australia |
|
|
Platform ID |
GPL13534 |
Series (1) |
GSE42700 |
Epigenome analysis of buccal cells from monozygotic and dizygotic twins |
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