|
| Status |
Public on Jun 01, 2014 |
| Title |
7970376111_R01C01 (batch2) |
| Sample type |
genomic |
| |
|
| Source name |
7970376111_R01C01
|
| Organism |
Homo sapiens |
| Characteristics |
diagnosis: AD
gender: FEMALE
race: White
age: 55
tau_a1: H1
tau_a2: H1
batch: 2
tissue: Peripheral Blood
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
genomic DNA was extracted and purified with standard methods
|
| Label |
Cy5 and Cy3
|
| Label protocol |
Standard Illumina 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 BeadArray Reader using standard recommended Illumina scanner setting
|
| Data processing |
BeadStudio software
Raw data was processed using the Illumina GenomeStudio software (version 2010.3). Background correction and color normalization were performed using the R package minfi version 1.2.0 and normalization using Subset-quantile Within Array Normalization (SWAN). Probes were excluded from further analysis if >95% samples had detection p-value >0.01.
Raw data (Unmethylated and methylated signal intensities) linked as supplementary files on Series record.
|
| |
|
| Submission date |
Jan 02, 2014 |
| Last update date |
Jun 01, 2014 |
| Contact name |
Giovanni Coppola |
| E-mail(s) |
gcoppola@ucla.edu
|
| Phone |
310-794-4172
|
| Organization name |
UCLA
|
| Department |
Psychiatry and Neurology
|
| Lab |
Neurogenetics
|
| Street address |
1524 Gonda, 695 Charles Young Drive South
|
| City |
Los Angeles |
| State/province |
CA |
| ZIP/Postal code |
90095 |
| Country |
USA |
| |
|
| Platform ID |
GPL13534 |
| Series (1) |
| GSE53740 |
An Epigenetic Signature in Peripheral Blood Associated with Neurodegenerative Tauopathy and the Risk-Associated Haplotype on 17q21.31 |
|
