|
| Status |
Public on Feb 24, 2012 |
| Title |
Harvard Sib CHB1000006579 |
| Sample type |
genomic |
| |
|
| Source name |
leukocyte
|
| Organism |
Homo sapiens |
| Characteristics |
group: Harvard.Sib
gender: M
sentrix id: 6229017062
sentrix position: R01C01
experiment: 3
age at collection months: 176
ethnicity: Other
cell type: leukocyte
|
| Treatment protocol |
Extracted DNA was bisulfite treated with the Zymo bisulfite kit according the manufacturer's specifications
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
DNA was extracted by the Rutgers University Cell and DNA Repository RUCDR
|
| Label |
biotin nucleotide or dinitrophenyl labeled
|
| Label protocol |
A single nucleotide extension was labeled either with biotin or dinitrophenyl according to the manufacturer's (Illumina) specifications
|
| |
|
| Hybridization protocol |
Followed the manufacturer's (Illumina) specifications
|
| Scan protocol |
Followed the manufacturer's (Illumina) specifications on either a BeadStation 500 or an iScan
|
| Description |
Harvard.Sib
|
| Data processing |
Avg beta (β), detection value, and signal for Probe A (unmethylated) and Probe B were exported from GenomeStudio v2010.3 Methylation Module 1.8.5. The manufacturer measures methylation through the beta (β) value calculated as probe B signal / (probe A signal + probe B signal + 100). Based on better reproducibility of the controls we calculated the methylation using a metric denoted beta prime (β') which is calculated as probe B signal / (probe A signal + probe B signal).
|
| |
|
| Submission date |
Feb 23, 2012 |
| Last update date |
Feb 24, 2012 |
| Contact name |
Benjamin G Barwick |
| E-mail(s) |
benjamin.barwick@emory.edu
|
| Phone |
(404) 285-2964
|
| Organization name |
Emory University
|
| Department |
Hematology and Medical Oncology
|
| Lab |
Barwick Lab
|
| Street address |
1365 Clifton Rd. NE WCI-C 4th Floor Benches 36-37
|
| City |
Atlanta |
| State/province |
GA |
| ZIP/Postal code |
30322 |
| Country |
USA |
| |
|
| Platform ID |
GPL13534 |
| Series (2) |
| GSE36054 |
Methylation Profiling of Blood DNA from Healthy Children |
| GSE36064 |
Methylation Profiling of Blood DNA from Healthy Children (Harvard Age Study) |
|
