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| Status |
Public on Aug 22, 2016 |
| Title |
lung carcinoma, HOPE fixed, paraffin embedded (15343) |
| 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
|
| 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 |
15343_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 |
|
| VALUE |
Average Beta, normalized (internal control) |
| Detection Pval |
Detection p-value |
| Data table |
| ID_REF |
VALUE |
Detection Pval |
| cg00000029 |
0.3129152 |
0 |
| cg00000108 |
0.8535813 |
0 |
| cg00000109 |
0.852609 |
0 |
| cg00000165 |
0.5410396 |
0 |
| cg00000236 |
0.8030518 |
0 |
| cg00000289 |
0.5788317 |
0 |
| cg00000292 |
0.6916397 |
0 |
| cg00000321 |
0.3882467 |
0 |
| cg00000363 |
0.2633342 |
0 |
| cg00000622 |
0.0226437 |
0 |
| cg00000658 |
0.7933293 |
0 |
| cg00000714 |
0.1180386 |
0 |
| cg00000721 |
0.8990769 |
0 |
| cg00000734 |
0.09640811 |
0 |
| cg00000769 |
0.07518641 |
0 |
| cg00000807 |
0.712275 |
0 |
| cg00000884 |
0.7144669 |
0 |
| cg00000905 |
0.1110667 |
0 |
| cg00000924 |
0.4482822 |
0 |
| cg00000948 |
0.7672755 |
0 |
Total number of rows: 485577
Table truncated, full table size 10969 Kbytes.
| Supplementary data files not provided |
| Processed data included within Sample table |
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