摘要翻译：
大规模基因组重排事件的建模者发现了排列语言中的自然句法，在这些事件中，DNA片段被倒置、移动、交换，甚至插入或删除。尽管如此，还是有各种各样的模型选择、假设和解释，使导航文献成为一个重大的挑战。事实上，即使是使用排列来模拟基因组重排的论文的作者也很难解释彼此的工作，因为基本假设的细微差异往往根深蒂固（因此有时甚至没有提到）。在这篇论文中，我们描述了排列被用来建立基因组和基因组重排事件模型的不同方法，给出了每种方法的一些特点和局限性，并说明了各种模型是如何相互联系的。这篇论文将帮助研究人员导航基因组重排模型的景观，并使作者更容易呈现清晰一致的模型。
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英文标题：
《Position and content paradigms in genome rearrangements: the wild and
  crazy world of permutations in genomics》
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作者：
Sangeeta Bhatia, Pedro Feij\~ao, Andrew R. Francis
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最新提交年份：
2016
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分类信息：

一级分类：Quantitative Biology        数量生物学
二级分类：Other Quantitative Biology        其他定量生物学
分类描述：Work in quantitative biology that does not fit into the other q-bio classifications
不适合其他q-bio分类的定量生物学工作
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英文摘要：
  Modellers of large scale genome rearrangement events, in which segments of DNA are inverted, moved, swapped, or even inserted or deleted, have found a natural syntax in the language of permutations. Despite this, there has been a wide range of modelling choices, assumptions and interpretations that make navigating the literature a significant challenge. Indeed, even authors of papers that use permutations to model genome rearrangement can struggle to interpret each others' work, because of subtle differences in basic assumptions that are often deeply ingrained (and consequently sometimes not even mentioned). In this paper, we describe the different ways in which permutations have been used to model genomes and genome rearrangement events, presenting some features and limitations of each approach, and show how the various models are related. This paper will help researchers navigate the landscape of genome rearrangement models, and make it easier for authors to present clear and consistent models.
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PDF链接：
https://arxiv.org/pdf/1610.00077