Combfit: A Normalization Method for Array CGH Data
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概要
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The recently developed array-based comparative genomic hybridization(array CGH) technique measures DNA copy number aberrations that occur as causes or consequences of cell diseases such as cancers. Conventional array CGH analysis classifies DNA copy number aberrations into three categories: no significant change, significant gain, and significant loss. However, recent improvements in microarray measurement precision enable more quantitative analysis of copy number aberrations. We propose a method, called comb fitting, that extracts a quantitative interpretation from array CGH data. We also propose modifications that allow us to apply comb fitting to cases featuring heterogeneity of local aberrations in DNA copy numbers. By using comb fitting, we can correct the baseline of the fluorescence ratio data measured by array CGH and simultaneously translate them into the amount of changed copy numbers for each small part of the chromosome, such as 0, ±1, ±2, ···. Comb fitting is applicable even when a considerable amount of contamination by normal cells exists and when heterogeneity in the ploidy number cannot be neglected.
- Information and Media Technologies 編集運営会議の論文
著者
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OBA SHIGEYUKI
Graduate School of Information Science, Nara Institute of Science and Technology
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Ohira Miki
Division Of Biochemistry And Innovative Cancer Therapeutics Chiba Cancer Center Research Institute
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Tomioka Nobumoto
The 1st Department Of Surgery Hokkaido University Graduate School Of Medicine
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Ishii Shin
Graduate School Of Informatics Kyoto University:graduate School Of Information Science Nara Institut
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