|
| Status |
Public on Jun 01, 2016 |
| Title |
matUPD8_sample1 |
| Sample type |
genomic |
| |
|
| Source name |
Maternal Uniparental Disomy for chromosome 8
|
| Organism |
Homo sapiens |
| Characteristics |
disease status: Maternal Uniparental Disomy for chromosome 8
tissue: Peripheral Blood
gender: Female
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
All samples were identified and obtained from collaborating clinical genetics laboratories. As these samples were provided by many different contributors, it is likely that the DNA extraction protocols varies among samples.
|
| Label |
Cy3, Cy5
|
| Label protocol |
Standard Illumina labelling protocol
|
| |
|
| Hybridization protocol |
bisulphite converted DNA was amplified, fragmented and hybridised to Illumina Infinium Human Methylation450 Beadchip using standard Illumina protocol
|
| Scan protocol |
Arrays were imaged using standard recommended Illumina scanner protocol
|
| Description |
none
|
| Data processing |
The methylation value was set to null for probes with a detection p-value >0.01. Probe sequences (50-mer oligonucleotides) were uniquely mapped to the reference human genome hg18 (NCBI36) using BLAT, allowing up to 2 mismatches and 1 gap. Beta values from the autosomal probes were quantile normalized using lumi package in R.
|
| |
|
| Submission date |
Dec 16, 2014 |
| Last update date |
Jun 01, 2016 |
| Contact name |
Ricky Shantilal Joshi |
| E-mail(s) |
ricky.joshi@mssm.edu
|
| Organization name |
Mount Sinai School of Medicine
|
| Department |
Genetics and Genomic Sciences
|
| Street address |
1470 Madison Avenue
|
| City |
New York City |
| State/province |
NY |
| ZIP/Postal code |
10128 |
| Country |
USA |
| |
|
| Platform ID |
GPL13534 |
| Series (1) |
| GSE64244 |
DNA Methylation Profiling of Uniparental Disomy Subjects Provides a Map of Parental Epigenetic Bias in the Human Genome. |
|
