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Status |
Public on Aug 22, 2016 |
Title |
lung carcinoma, HOPE fixed, paraffin embedded (15724) |
Sample type |
genomic |
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Source name |
lung carcinoma, HOPE fixed, paraffin embedded
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Organism |
Homo sapiens |
Characteristics |
disease state: tumor tissue: lung treatment: HOPE, paraffin
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Treatment protocol |
na
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Growth protocol |
na
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Extracted molecule |
genomic DNA |
Extraction protocol |
genomic DNA was extracted and purified from lung tissue samples using Qiagen QIAmp Kit (Qiagen, Hilden, Germany) according to standard instructions
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Label |
Cy5 and Cy3
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Label protocol |
Standard Illumina Protocol
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Hybridization protocol |
bisulphite converted DNA was amplified, fragmented and hybridized to Illumina Infinium Human Methylation450 Beadchip using standard Illumina protocol
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Scan protocol |
Arrays were imaged using iScan Reader using standard recommended Illumina scanner setting
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Description |
15724_TU_HOPE genomic DNA from lung carcinoma, HOPE fixed, paraffin embedded
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Data processing |
BeadStudio software v3.2
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Submission date |
Sep 23, 2013 |
Last update date |
Aug 22, 2016 |
Contact name |
Ole Ammerpohl |
Organization name |
UK Ulm
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Street address |
Albert-Einstein-Allee 11
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City |
Ulm |
ZIP/Postal code |
89081 |
Country |
Germany |
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Platform ID |
GPL13534 |
Series (1) |
GSE51077 |
The tissue is the issue: Improved methylome analysis from paraffin-embedded tissues by application of the HOPE-technique |
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Data table header descriptions |
ID_REF |
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VALUE |
Average Beta, normalized (internal control) |
Detection Pval |
Detection p-value |
Data table |
ID_REF |
VALUE |
Detection Pval |
cg00000029 |
0.3517424 |
0 |
cg00000108 |
0.8973916 |
0 |
cg00000109 |
0.8275274 |
0 |
cg00000165 |
0.5228413 |
0 |
cg00000236 |
0.8455971 |
0 |
cg00000289 |
0.569208 |
0 |
cg00000292 |
0.5051467 |
0 |
cg00000321 |
0.2988861 |
0 |
cg00000363 |
0.265023 |
0 |
cg00000622 |
0.02122838 |
0 |
cg00000658 |
0.8025866 |
0 |
cg00000714 |
0.123759 |
0 |
cg00000721 |
0.8925859 |
0 |
cg00000734 |
0.08530048 |
0 |
cg00000769 |
0.06942797 |
0 |
cg00000807 |
0.7563881 |
0 |
cg00000884 |
0.8101814 |
0 |
cg00000905 |
0.08497204 |
0 |
cg00000924 |
0.4643482 |
0 |
cg00000948 |
0.8267201 |
0 |
Total number of rows: 485577
Table truncated, full table size 10975 Kbytes.
Supplementary data files not provided |
Processed data included within Sample table |
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