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Sample GSM822621 Query DataSets for GSM822621
Status Public on Jun 13, 2012
Title Middle_age_3
Sample type genomic
 
Source name Whole blood
Organism Homo sapiens
Characteristics gender: Female
age: Middle age
tissue: Whole blood
cell type: Peripheral blood mononuclear cells (PBMC)
disease state: Healthy donor
Extracted molecule genomic DNA
Extraction protocol Peripheral blood was obtained from female healthy donors from different ages. Peripheral blood mononuclear cells (PBMC) were extracted using a Ficoll gradient. To separate CD19 and CD4 positive cells CD19 MicroBeads and CD4+ T cell Isolation kit II (Miltenyi Biotec) was applied following the manufacturer’s instructions. DNA was Phenol:Chloroform:Isoamylalcohol (Sigma), respectively. CD19+ B-cells were immortalized by Epstein-Barr-Virus (EBV) applying previous published protocol (Miller, G. & Lipman, M. Release of infectious Epstein-Barr virus by transformed marmoset leukocytes. Proc. Natl. Acad. Sci. U.S.A 70, 190-194 (1973)). Bisulphite modification of genomic DNA was carried out with the EZ DNA Methylation Kit (Zymo) following the manufacturer's protocol.
Label Cy3 and Cy5
Label protocol Illumina Infinium Assay
 
Hybridization protocol bisulphite converted DNA was amplified, fragmented and hybridised to Illumina Infinium Human Methylation450 Beadchip using standard Illumina protocol
Scan protocol Arrays were imaged using High Scan SQ using standard recommended Illumina scanner setting
Description healthy sample
Data processing The intensities of the images are extracted using Genome Studio V2011.2. Methylation score of each CpG is represented as AVG_beta value.
Raw data file linked to Series record: Unmethylated (Signal_A) and methylated (Signal_B) signal intensities.
 
Submission date Oct 26, 2011
Last update date Jun 13, 2012
Contact name Manel Esteller
Organization name IDIBELL
Department PEBC
Lab Cancer Epigenetics
Street address Hospital Duran i Reynals Av. Gran Via s/n km, 2.7
City L'Hospitalet de Llobregat
State/province Barcelona
ZIP/Postal code 08908
Country Spain
 
Platform ID GPL13534
Series (1)
GSE33233 DNA methylation differences between Newborns and Nonagenarians [PBMNC]

Data table header descriptions
ID_REF
VALUE Average Beta
105648.Detection Pval

Data table
ID_REF VALUE 105648.Detection Pval
cg00000029 0.4205298 0
cg00000108 0.9130501 0
cg00000109 0.8315946 0
cg00000165 0.2828947 0
cg00000236 0.707933 0
cg00000289 0.5673828 0
cg00000292 0.789966 0
cg00000321 0.2942847 0
cg00000363 0.4330155 0
cg00000622 0.01831502 0
cg00000658 0.794336 0
cg00000714 0.1854986 0
cg00000721 0.870465 0
cg00000734 0.09008669 0
cg00000769 0.0637947 0
cg00000807 0.7784815 0
cg00000884 0.8252838 0
cg00000905 0.1074735 0
cg00000924 0.4613617 0
cg00000948 0.8441977 0

Total number of rows: 485577

Table truncated, full table size 10990 Kbytes.




Supplementary data files not provided
Processed data included within Sample table

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