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Sample GSM2476145 Query DataSets for GSM2476145
Status Public on Feb 04, 2017
Title FUCH65M
Sample type genomic
 
Source name genomic DNA from corneal endothelial tissue
Organism Homo sapiens
Characteristics Sex: Male
age: 65
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 Disease CE sample; 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).
 
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

Supplementary file Size Download File type/resource
GSM2476145_9761749160_R06C01_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM2476145_9761749160_R06C01_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Raw data provided as supplementary file
Processed data are available on Series record

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