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| Status |
Public on Mar 09, 2010 |
| Title |
Copy number variation analysis of nasopharyngeal carcinoma cell lines |
| Organism |
Homo sapiens |
| Experiment type |
Genome variation profiling by genome tiling array
|
| Summary |
To analyze the global copy number aberrations of two nasopharyngeal carcinoma cell lines, TW01 and HONE1.
Global copy number aberrations were analyzed by using high-resolution oligoarray CGH on two NPC cell lines, TW01 and HONE1. The overviews of array CGH profiles reveal high similarity between both NPC cell lines, but the degree of copy-number alterations were more severe in TW01 than in HONE1. There were 1204 and 1513 genes with copy-number gain (CNVs with aberration score > 0.5 and number of contiguous probes ≥ 3) in TW01 and HONE1, respectively. Among them, 850 were commonly amplified in both cell lines (Gain-TH). There were 3525 genes and 926 genes with copy-number loss (CNVs with aberration score < 0.5 and number of contiguous probe ≥ 3) in TW01 and HONE1, respectively. Among them, 582 were commonly deleted in both cell lines (Loss-TH). The most prominent CNVs observed including gain on 3q26.2-q26.31, loss on 3p21.2-q12.1, 9p24.3-p21.3, and nearly the whole Y chromosome.
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| Overall design |
Comparison experiment, genome of NPC cells vs. normal male genome (NM). Biological replicates: TW01-1 vs. NM; TW01-2 vs. NM; HONE1-1 vs. NM; HONE1-2 vs. NM.
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| Contributor(s) |
Lee CH, Chen CJ |
| Citation(s) |
19336547 |
| |
| Submission date |
Mar 10, 2009 |
| Last update date |
Oct 26, 2016 |
| Contact name |
Chia Huei Lee |
| E-mail(s) |
chlee124@nhri.edu.tw
|
| Organization name |
Taiwan National Health Research Institute
|
| Department |
National Institute of Cancer Research
|
| Street address |
35, Keyan Rd.
|
| City |
Zhunan Miaoli County |
| ZIP/Postal code |
114 |
| Country |
Taiwan |
| |
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| Platforms (1) |
| GPL4091 |
Agilent-014693 Human Genome CGH Microarray 244A (Feature number version) |
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| Samples (4)
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| This SubSeries is part of SuperSeries: |
| GSE15191 |
Nasopharyngeal carcinoma cell lines TW01 and HONE1: transcriptomic and genomic analyses |
|
| Relations |
| BioProject |
PRJNA123125 |
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