|
| Status |
Public on Mar 06, 2013 |
| Title |
Buccal cell Birth twin 1, B1016 |
| Sample type |
genomic |
| |
|
| Source name |
Buccal cheek swab, MZ, birth
|
| Organism |
Homo sapiens |
| Characteristics |
gender: male
age: birth
cell type: normal buccal cells
monozygotic: 1
dizygotic: 0
monochorionic: 0
sibship: 1
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.
|
| |
|
| Hybridization protocol |
Bisulphite-converted DNA was amplified, fragmented and hybridised to the Illumina Infinium Human Methylation27 BeadChip using the standard llumina protocol.
|
| Scan protocol |
Arrays were imaged using the BeadArray Reader using the standard recommended Illumina scanner setting.
|
| Description |
B1016.1_B
|
| 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.
|
| |
|
| 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 |
|
