How not to search for isochores: a reply to Cohen et Al |
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Authors: | Clay Oliver Bernardi Giorgio |
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Institution: | Laboratory of Molecular Evolution, Stazione Zoologica Anton Dohrn, Villa Comunale, Napoli, Italy |
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Abstract: | In a recent paper in these pages, Cohen et al. search for isochores in the human genome, based on a system of attributes that they assign to isochores. The putative isochores that they find and choose for presentation are almost all below 45% GC and cover only about 41% of the genome. Closer inspection reveals that the authors' methodology systematically loses GC-rich isochores because it does not anticipate the considerable fluctuations and corresponding long-range correlations that characterize mammalian DNA and that are highest in GC-rich DNA. Thus, they over-fragment GC-rich isochores (and also many GC-poor isochores) beyond recognition. |
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Keywords: | base composition evolution heterogeneity long-range correlations |
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