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Sample GSM1321548 Query DataSets for GSM1321548
Status Public on Feb 04, 2014
Title genomic DNA from Severe T-cell Lymphopenia Reconstruction mixture
Sample type genomic
Source name Severe T-cell Lymphopenia Reconstruction mixture STpen
Organism Homo sapiens
Characteristics sample type: Reconstruction mixture
disease state: normal
sample subtype: Severe T-cell Lymphopenia
Treatment protocol Leukocyte subtypes were purified via magnetic activated cell sorting (MACS) using kits from Miltenyi Biotec; venous whole blood was collected into Heparin
Growth protocol Not applicable
Extracted molecule genomic DNA
Extraction protocol Genomic DNA was extracted using QIAGEN Dneasy blood and tissue kit according to standard instructions
Label Cy5 and Cy3
Label protocol Standard Illumina Protocol
Hybridization protocol Bisulphite converted DNA was amplified, fragmented and hybridized to Illumina Infinium HumanMethylation450 Beadchip using standard Illumina protocol
Scan protocol Arrays were imaged using BeadArray Reader using standard recommended Illumina scanner setting
Description X8942297054_R02C01
Infinium Type I and Type II Probes
Severe T-cell Lymphopenia Reconstruction mixture STpen
Data processing Unmethylated and methylated signal intensities generated using methylumi in R (see supplementary file on the Series record).
Average Betas (not normalized) generated using GenomeStudio v2010.3
Submission date Feb 04, 2014
Last update date Feb 04, 2014
Contact name William P Accomando
Organization name Harvard School of Public Health
Department Epidemiology
Street address Kresge Bldg 911, 677 Huntington Ave
City Boston
State/province MA
ZIP/Postal code 02115
Country USA
Platform ID GPL13534
Series (2)
GSE54670 Illumina Infinium HumanMethylation450 data for human whole blood samples and for mixtures of purified white blood cells reconstructing human blood
GSE54671 Quantitative reconstruction of leukocyte subsets using DNA methylation

Data table header descriptions
VALUE Average Beta (0-1 constrained), not normalized

Data table
cg00000029 0.4698203
cg00000108 0.9593382
cg00000109 0.8836845
cg00000165 0.2478313
cg00000236 0.7277538
cg00000289 0.7317073
cg00000292 0.8271148
cg00000321 0.2835019
cg00000363 0.4039946
cg00000622 0.02640569
cg00000658 0.8120671
cg00000714 0.209807
cg00000721 0.9141173
cg00000734 0.1040899
cg00000769 0.07681838
cg00000807 0.8429966
cg00000884 0.8505139
cg00000905 0.1165144
cg00000924 0.5751313
cg00000948 0.8751908

Total number of rows: 485577

Table truncated, full table size 10010 Kbytes.

Supplementary data files not provided
Processed data included within Sample table

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