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Sample GSM2285166 Query DataSets for GSM2285166
Status Public on Aug 20, 2016
Title SC12-023 SC [9341679025_R06C02]
Sample type genomic
 
Source name fibroblast from foreskin
Organism Homo sapiens
Characteristics gender: male
differentiation stage: SC
Extracted molecule genomic DNA
Extraction protocol Samples for DNA analysis were prepared by removing culture media from the plate, scraping the cell layer with a cell scraper, and collecting in DPBS. The cell suspension was centrifuged for 1 minute at 1000xg and excess DPBS was removed from the pellet. The pellet was stored at -80°C until DNA was isolated.
Label Cy3/Cy5
Label protocol Standard Illumina Protocol from http://support.illumina.com/content/dam/illumina-support/documents/documentation/chemistry_documentation/infinium_assays/infinium_hd_methylation/infinium-hd-methylation-guide-15019519-01.pdf
 
Hybridization protocol Standard Illumina Protocol from http://support.illumina.com/content/dam/illumina-support/documents/documentation/chemistry_documentation/infinium_assays/infinium_hd_methylation/infinium-hd-methylation-guide-15019519-01.pdf
Scan protocol Images were obtained with the Illumina HiScan.
Description SC12-023
Data processing Data were read using the Bioconductor package 'minfi' with default settings. See https://www.synapse.org/#!Synapse:syn2233188 for complete details.
 
Submission date Aug 19, 2016
Last update date Aug 20, 2016
Contact name Kenneth Daily
Organization name Sage Bionetworks
Street address 1100 Fairview Ave N
City Seattle
State/province WA
ZIP/Postal code 98109
Country USA
 
Platform ID GPL13534
Series (1)
GSE85828 Molecular, Phenotypic, and Sample-associated Data to Describe Pluripotent Stem Cell Lines and Derivatives
Relations
BioSample SAMN05559284

Data table header descriptions
ID_REF
VALUE Average Beta
Detection Pval

Data table
ID_REF VALUE Detection Pval
cg00050873 0.883686905632773 0
cg00212031 0.923010380622837 0
cg00213748 0.590909090909091 0.000160778633878422
cg00214611 0.0744715984147952 0
cg00455876 0.578045112781955 0
cg01707559 0.0679258564054434 0
cg02004872 0.0318102949681897 0
cg02011394 0.971556699746709 0
cg02050847 0.95922889430534 0
cg02233190 0.933687744823727 0
cg02494853 0.0275856648852562 0
cg02839557 0.0486854917234664 0
cg02842889 0.0620587752421606 0
cg03052502 0.96326426195958 0
cg03155755 0.937107507732683 0
cg03244189 0.716310679611651 0
cg03443143 0.911571885958225 0
cg03683899 0.0474549725920125 0
cg03695421 0.868092691622103 0
cg03706273 0.0252603953087837 0

Total number of rows: 485512

Table truncated, full table size 11266 Kbytes.




Supplementary file Size Download File type/resource
GSM2285166_9341679025_R06C02_Grn.idat.gz 4.0 Mb (ftp)(http) IDAT
GSM2285166_9341679025_R06C02_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table
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