|
Status |
Public on Feb 04, 2017 |
Title |
FUCH63M |
Sample type |
genomic |
|
|
Source name |
genomic DNA from corneal endothelial tissue
|
Organism |
Homo sapiens |
Characteristics |
Sex: Male age: 63 tissue: Diseased corneal endothelium (CE) tissue disease status: Fuchs Endothelial Corneal Dystrophy
|
Treatment protocol |
corneal endothelial tissue stored in RNAlater until DNA extraction
|
Extracted molecule |
genomic DNA |
Extraction protocol |
genomic DNA was extracted and purified from corneal endothelial tissue using Macherey Nagel NucleoSpin Tissue XS according to manufacturer instructions
|
Label |
Cy5 and Cy3
|
Label protocol |
TEM reagent and Xstaining using Illumina chemistry
|
|
|
Hybridization protocol |
Dispense fragmented and resuspended DNA samples onto Illumina Beadchips at 48C overnight in an Illumina Hybridization oven
|
Scan protocol |
Illumina iScan system
|
Description |
Used in final analysis
|
Data processing |
Raw intensity estimates were imported from the IDAT files and processed using the methylumi R package. We corrected for color biases (adjColorBias.quantile function) and background intensity ("bgAdjust2C" method implemented in lumiMethyB) before quantile normalization (lumiMethyN).
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|
|
Submission date |
Feb 03, 2017 |
Last update date |
Feb 04, 2017 |
Contact name |
Selene Clay |
Organization name |
University of California, San Francisco
|
Department |
Ophthalmology
|
Lab |
Matilda Chan
|
Street address |
1001 Potrero Ave Rm 210
|
City |
San Francisco |
State/province |
California |
ZIP/Postal code |
94110 |
Country |
USA |
|
|
Platform ID |
GPL13534 |
Series (1) |
GSE94462 |
Comprehensive characterization of DNA methylation changes in Fuchs Endothelial Corneal Dystrophy |
|