Real-Time Definition of Non-Randomness in the Distribution of Genomic Events

Ulrich Abel, Annette Deichmann, Cynthia Bartholomae, Kerstin Schwarzwaelder, Hanno Glimm, Steven Howe, Adrian Thrasher, Alexandrine Garrigue, Salima Hacein-Bey-Abina, Marina Cavazzana-Calvo, Alain Fischer, Dirk Jaeger, Christof von Kalle and Manfred Schmidt

PLOS ONE, 2007, vol. 2, issue 6, 1-5

Abstract: Features such as mutations or structural characteristics can be non-randomly or non-uniformly distributed within a genome. So far, computer simulations were required for statistical inferences on the distribution of sequence motifs. Here, we show that these analyses are possible using an analytical, mathematical approach. For the assessment of non-randomness, our calculations only require information including genome size, number of (sampled) sequence motifs and distance parameters. We have developed computer programs evaluating our analytical formulas for the real-time determination of expected values and p-values. This approach permits a flexible cluster definition that can be applied to most effectively identify non-random or non-uniform sequence motif distribution. As an example, we show the effectivity and reliability of our mathematical approach in clinical retroviral vector integration site distribution.

Date: 2007
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Persistent link: https://EconPapers.repec.org/RePEc:plo:pone00:0000570

DOI: 10.1371/journal.pone.0000570

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