|
| Status |
Public on Aug 26, 2015 |
| Title |
peripheral T cells-ice storm-1391 |
| Sample type |
genomic |
| |
|
| Source name |
peripheral T cells/ice storm/1391
|
| Organism |
Homo sapiens |
| Characteristics |
storm32: 18
iesr_ts: 4
Sex: F
tissue: T cell
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
T cells were isolated from the PBMCs by immunomagnetic positive selection using CD3 dynabeads (Dynal). DNA was extracted with Wizard Genomic DNA Purification kit (Promega) following the manufacturers protocol. Genomic DNA was quantified using Picogreen protocol (Quant-iT PicoGreen dsDNA Products, Invitrogen) and read on SpectraMAX GeminiXS Spectrophotometer. Bisulfite conversion was performed with 250 ng of genomic DNA using the EZ-96 DNA Methylation-Gold Kit (Zymo Research) according to the manufacturer's instructions.
|
| Label |
Cy5 and Cy3
|
| Label protocol |
Standard Illumina Infinium Assay 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 scanned using the Illumina iScan Reader using standard recommended Illumina scanner settings.
|
| Data processing |
Extracted microarray intensities were preprocessed and normalized using the 'minfi' Bioconductor R package according to the Illumina Genome Studio protocol--background correction followed by normalization to control probes.
|
| |
|
| Submission date |
Aug 25, 2015 |
| Last update date |
Aug 26, 2015 |
| Contact name |
Moshe Szyf |
| E-mail(s) |
moshe.szyf@mcgill.ca
|
| Organization name |
McGill University
|
| Department |
Pharmacology
|
| Street address |
McIntyre Medical Building, 3655 Promenade Sir William Osler, Room 1309
|
| City |
Montreal |
| State/province |
Quebec |
| ZIP/Postal code |
H3G 1Y6 |
| Country |
Canada |
| |
|
| Platform ID |
GPL13534 |
| Series (1) |
| GSE72354 |
DNA methylation signatures triggered by prenatal maternal stress exposure to a natural disaster: Project Ice Storm |
|
