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Status |
Public on Aug 22, 2016 |
Title |
lung carcinoma, HOPE fixed, paraffin embedded (5770) |
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 |
5770_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 |
0.2429946 |
0 |
cg00000108 |
0.9266232 |
0 |
cg00000109 |
0.7957805 |
0 |
cg00000165 |
0.3742118 |
0 |
cg00000236 |
0.8210471 |
0 |
cg00000289 |
0.6416873 |
0 |
cg00000292 |
0.6589146 |
0 |
cg00000321 |
0.303028 |
0 |
cg00000363 |
0.3610821 |
0 |
cg00000622 |
0.01020977 |
0 |
cg00000658 |
0.8176439 |
0 |
cg00000714 |
0.1693919 |
0 |
cg00000721 |
0.9078517 |
0 |
cg00000734 |
0.08370701 |
0 |
cg00000769 |
0.07548291 |
0 |
cg00000807 |
0.7092402 |
0 |
cg00000884 |
0.817155 |
0 |
cg00000905 |
0.07314931 |
0 |
cg00000924 |
0.4695323 |
0 |
cg00000948 |
0.8663598 |
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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