Efficient Calculation of Interval Scores for DNA Copy Number Data Analysis
نویسندگان
چکیده
منابع مشابه
Efficient Calculation of Interval Scores for DNA Copy Number Data Analysis
DNA amplifications and deletions characterize cancer genome and are often related to disease evolution. Microarray-based techniques for measuring these DNA copy-number changes use fluorescence ratios at arrayed DNA elements (BACs, cDNA, or oligonucleotides) to provide signals at high resolution, in terms of genomic locations. These data are then further analyzed to map aberrations and boundarie...
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Developments in microarray and high-throughput sequencing (HTS) technologies have resulted in a rapid expansion of research into epigenomic changes that occur in normal development and in the progression of disease, such as cancer. Not surprisingly, copy number variation (CNV) has a direct effect on HTS read densities and can therefore bias differential detection results. We have developed a fl...
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Calculation of the strength of dependence in the case of interval data is computation-wise a very demanding task. We consider the case of Kendall’s τ statistic, and calculate approximations of its minimal and maximal values using very easy to compute heuristic approximations. Using Monte Carlo simulations and more accurate calculations based on an evolutionary algorithm we have evaluated the ef...
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High-resolution array comparative genomic hybridization (aCGH) provides exon-level mapping of DNA aberrations in cells or tissues. Such aberrations are central to carcinogenesis and, in many cases, central to targeted therapy of the cancers. Some of the aberrations are sporadic, one-of-a-kind changes in particular tumor samples; others occur frequently and reflect common themes in cancer biolog...
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Background: Based on the studies, variation in the mitochondrial DNA (mtDNA) copy number in peripheral blood leukocytes is associated with increased susceptibility to diseases including cancer. Opiate abusers are at high risk for diseases. In this study, we measured the mtDNA copy number in peripheral blood leukocytes in a group of opiate abusers compared with those in healthy individuals. Met...
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ژورنال
عنوان ژورنال: Journal of Computational Biology
سال: 2006
ISSN: 1066-5277,1557-8666
DOI: 10.1089/cmb.2006.13.215