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Sample GSM2285161 Query DataSets for GSM2285161
Status Public on Aug 20, 2016
Title SC13-043 SC [9341679025_R03C02]
Sample type genomic
 
Source name mononuclear from bone marrow
Organism Homo sapiens
Characteristics gender: female
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 SC13-043
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 SAMN05559343

Data table header descriptions
ID_REF
VALUE Average Beta
Detection Pval

Data table
ID_REF VALUE Detection Pval
cg00050873 0.545676004872107 0.39885709369184
cg00212031 0.492822966507177 0.990880194338579
cg00213748 0.576671035386632 0.700591605692053
cg00214611 0.519830028328612 0.902343724385018
cg00455876 0.3578856152513 1.02508536248269e-06
cg01707559 0.317533718689788 0
cg02004872 0.179775280898876 0
cg02011394 0.534246575342466 0.834292255069272
cg02050847 0.466037735849057 0.616681210048948
cg02233190 0.31791221826809 4.32683734336026e-05
cg02494853 0.0579994396189409 0
cg02839557 0.485791610284168 0.802298079877295
cg02842889 0.584615384615385 0.66701084788681
cg03052502 0.492975734355045 0.60114290630816
cg03155755 0.508849557522124 0.0844168308465444
cg03244189 0.190048939641109 0
cg03443143 0.506186726659168 0.120274851230382
cg03683899 0.431734317343173 0.553653799615338
cg03695421 0.36806342015855 4.00102935793623e-06
cg03706273 0.0769733972961186 0

Total number of rows: 485512

Table truncated, full table size 11196 Kbytes.




Supplementary file Size Download File type/resource
GSM2285161_9341679025_R03C02_Grn.idat.gz 4.0 Mb (ftp)(http) IDAT
GSM2285161_9341679025_R03C02_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table
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