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Sample GSM2416699 Query DataSets for GSM2416699
Status Public on Jan 08, 2018
Title Aldosterone-producing-adenoma_349
Sample type genomic
 
Source name Aldosterone-producing adenoma
Organism Homo sapiens
Characteristics tissue: adenoma
somatically mutated gene: KCNJ5
Extracted molecule genomic DNA
Extraction protocol Genomic DNA was isolated from APA and CPA tissues of the 42 patients using All Prep DNA/RNA Mini kit (Qiagen, Valencia, CA) according to the manufacturer’s instruction.
Label Cy3, Cy5
Label protocol Standard Illumina labelling protocol
 
Hybridization protocol Bisulfite-converted DNA was amplified, fragmented and hybridized to Illumina Infinium Human MethylationEPIC Beadchip using standard Illumina protocol.
Scan protocol Beadchip arrays were imaged using the iScan system with standard recommended Illumina scanner setting.
Description APA349
Data processing Genome Studio V2011.2 (Illumina)
Normalized average beta value. The methylation level of each of the > 850,000 CpG sites was calculated using the GenomeStudio Methylation Module 1.9.0 (Illumina). Normalization was performed using Normalization to Internal Controls and Background Subtraction options implemented in the Methylation Module 1.9.0.
Unmethylated and methylated signal intensities in APA_EPIC_matrix-signal-intensities.txt supplementary file
 
Submission date Dec 05, 2016
Last update date Jan 08, 2018
Contact name Kazuhiko Nakabayashi
E-mail(s) nakabaya-k@ncchd.go.jp
Organization name National Research Institute for Child Health and Development
Department Department of Maternal-Fetal Biology
Street address 2-10-1 Okura
City Setagaya
State/province Tokyo
ZIP/Postal code 157-8535
Country Japan
 
Platform ID GPL21145
Series (1)
GSE90867 Molecular characteristics of the KCNJ5 mutated aldosterone-producing adenomas.

Data table header descriptions
ID_REF
VALUE Normalized average beta value.
APA349_Detection Pval

Data table
ID_REF VALUE APA349_Detection Pval
cg00000029 0.1791692 0
cg00000103 0.8398858 0
cg00000109 0.900808 0
cg00000155 0.9270933 0
cg00000158 0.936375 0
cg00000165 0.0930324 0
cg00000221 0.670315 0
cg00000236 0.8335897 0
cg00000289 0.8375412 0
cg00000292 0.7667624 0
cg00000321 0.1527313 0
cg00000363 0.6027662 0
cg00000540 0.5328507 0
cg00000579 0.93778 0
cg00000596 0.3507206 0
cg00000622 0.01433311 0
cg00000658 0.8143776 0
cg00000714 0.1369653 0
cg00000721 0.9147313 0
cg00000734 0.1051153 0

Total number of rows: 866895

Table truncated, full table size 19533 Kbytes.




Supplementary data files not provided
Processed data included within Sample table

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