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Sample GSM1866513 Query DataSets for GSM1866513
Status Public on Jun 30, 2016
Title PPCD Affected Individual 2
Sample type genomic
 
Channel 1
Source name blood leukocytes, affected
Organism Homo sapiens
Characteristics disease status: posterior polymorphous corneal dystrophy 1 (PPCD1)
cell type: blood leukocytes
gender: female
Extracted molecule genomic DNA
Extraction protocol Genomic DNA was isolated using the FlexiGene DNA kit as per manufacturer's recommendations.
Label Cy5
Label protocol As per manufacturer's instructions. Protocol: Agilent Oligonucleotide Array-Based CGH for Genomic DNA Analysis - Enzymatic Labeling for Blood Cells or Tissues - Version 6,3, October 2010.
 
Channel 2
Source name Human reference DNA (Agilent 5190-4371)
Organism Homo sapiens
Characteristics gender: female
sample type: reference
Extracted molecule genomic DNA
Extraction protocol Genomic DNA was isolated using the FlexiGene DNA kit as per manufacturer's recommendations.
Label Cy3
Label protocol As per manufacturer's instructions. Protocol: Agilent Oligonucleotide Array-Based CGH for Genomic DNA Analysis - Enzymatic Labeling for Blood Cells or Tissues - Version 6,3, October 2010.
 
 
Hybridization protocol As per manufacturer's instructions. Protocol: Agilent Oligonucleotide Array-Based CGH for Genomic DNA Analysis - Enzymatic Labeling for Blood Cells or Tissues - Version 6,3, October 2010.
Scan protocol Agilent Feature Extraction V 11.5.1.
Description Affected 2
Data processing Agilent CytoGenomics 3.0.1.1 software. Genome build hg19. Default Analysis Method - CGH+SNP v2. Normalization: GC correction and Diploid Peak Centralization.
 
Submission date Sep 01, 2015
Last update date Jun 30, 2016
Contact name Anthony J. Aldave
E-mail(s) Aldave@jsei.ucla.edu
Organization name Stein Eye Institute, UCLA
Department Ophthalmology
Lab Cornea Genetics Laboratory
Street address 200 Stein Plaza DSERC 3-143
City Los Angeles
State/province CA
ZIP/Postal code 90095
Country USA
 
Platform ID GPL20879
Series (1)
GSE72617 Identification of Potentially Pathogenic Variants in the Posterior Polymorphous Corneal Dystrophy 1 Locus

Data table header descriptions
ID_REF
VALUE Mean Log2 Ratio (test/reference)

Data table
ID_REF VALUE
A_18_P10003754 -0.04817106
A_18_P10006640 -0.052886162
A_16_P00007064 -0.13985428
A_18_P10020844 -0.10504672
A_18_P10026487 -0.026991297
A_16_P00011128 -0.03569864
A_16_P00011351 -0.014073113
A_16_P00013104 -0.17484546
A_14_P128013 0.061994124
A_16_P00016149 -0.047289927
A_14_P127263 0.12318243
A_16_P00017737 -0.15264317
A_16_P00022293 -0.05249474
A_16_P15048277 -0.13794346
A_16_P15049024 -0.090262964
A_16_P35052127 0.008430362
A_14_P137506 0.15424137
A_16_P15052592 -0.26752102
A_14_P130600 0.14604026
A_16_P15059239 -0.40063173

Total number of rows: 55076

Table truncated, full table size 1430 Kbytes.




Supplementary file Size Download File type/resource
GSM1866513_Affected_2.txt.gz 17.3 Mb (ftp)(http) TXT
Raw data provided as supplementary file
Processed data included within Sample table

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