|
Status |
Public on Jan 24, 2013 |
Title |
genomic DNA from cerebellum_6042316085_R06C01_Cohort 1Ai |
Sample type |
genomic |
|
|
Source name |
6042316085_R06C01_Cohort 1Ai
|
Organism |
Homo sapiens |
Characteristics |
subjectid: 83 barcode: 6042316085_R06C01 lunnonetal: TRUE tissue_code: H braak.stage: 6 Sex: MALE ad.disease.status: AD age.brain: 74 age.blood: 70 source tissue: cerebellum
|
Extracted molecule |
genomic DNA |
Extraction protocol |
Genomic DNA was extracted and purified from post-mortem brain or blood samples using phenol-chloroform protocol according to standard instructions
|
Label |
Cy5 and Cy3
|
Label protocol |
Standard Illumina Protocol
|
|
|
Hybridization protocol |
Bisulfite converted DNA was amplified, fragmented and hybridised to Illumina Infinium Human Methylation450 Beadchip using standard Illumina protocol
|
Scan protocol |
Arrays were imaged using HiScan using standard recommended Illumina scanner setting
|
Data processing |
GenomeStudio software v2011.1 used to generate the raw intensity file (unmethylated and methylated signal intensities). Data used in the development of the R wateRmelon package for analysis of Illumina Infinium450 Human Methylation data. The GenomeStudio v2011.1-computed Average Betas (normalized) is betaqn_geo_all cohorts.csv. Thirteen other wateRmelon-generated normalized beta matrices include: danen_geo_all cohorts.csv danes_geo_all cohorts.csv danet_geo_all cohorts.csv daten1_geo_all cohorts.csv daten2_geo_all cohorts.csv fuks_geo_all cohorts.csv nanes_geo_all cohorts.csv nanet_geo_all cohorts.csv nasen_geo_all cohorts.csv naten_geo_all cohorts.csv swan_geo_all cohorts.csv tost_geo_all cohorts.csv dasen_geo_all cohorts.csv
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|
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Submission date |
Jan 24, 2013 |
Last update date |
Jul 23, 2014 |
Contact name |
Chloe Wong |
E-mail(s) |
chloe.wong@kcl.ac.uk
|
Organization name |
King's College London
|
Street address |
MRC SGDP Centre, Institute of Psychiatry,
|
City |
London |
State/province |
Select a State or Province |
ZIP/Postal code |
SE5 8AF |
Country |
United Kingdom |
|
|
Platform ID |
GPL13534 |
Series (1) |
GSE43414 |
A data-driven approach to preprocessing Illumina 450K methylation array data |
|
Relations |
Reanalyzed by |
GSM1443605 |