Position and Content Paradigms in Genome Rearrangements. The Wild and Crazy World of Permutations in Genomics

Bhatia S, Feijão P, Francis AR (2018)
BULLETIN OF MATHEMATICAL BIOLOGY 80(12): 3227-3246.

Zeitschriftenaufsatz | Veröffentlicht | Englisch
 
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Autor/in
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Abstract / Bemerkung
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 permutation-based genome rearrangement models and make it easier for authors to present clear and consistent models.
Stichworte
Genome rearrangement; Permutation; Symmetric group; Double cut and join; Inversion
Erscheinungsjahr
2018
Zeitschriftentitel
BULLETIN OF MATHEMATICAL BIOLOGY
Band
80
Ausgabe
12
Seite(n)
3227-3246
ISSN
0092-8240
eISSN
1522-9602
Page URI
https://pub.uni-bielefeld.de/record/2932754

Zitieren

Bhatia S, Feijão P, Francis AR. Position and Content Paradigms in Genome Rearrangements. The Wild and Crazy World of Permutations in Genomics. BULLETIN OF MATHEMATICAL BIOLOGY. 2018;80(12):3227-3246.
Bhatia, S., Feijão, P., & Francis, A. R. (2018). Position and Content Paradigms in Genome Rearrangements. The Wild and Crazy World of Permutations in Genomics. BULLETIN OF MATHEMATICAL BIOLOGY, 80(12), 3227-3246. doi:10.1007/s11538-018-0514-3
Bhatia, S., Feijão, P., and Francis, A. R. (2018). Position and Content Paradigms in Genome Rearrangements. The Wild and Crazy World of Permutations in Genomics. BULLETIN OF MATHEMATICAL BIOLOGY 80, 3227-3246.
Bhatia, S., Feijão, P., & Francis, A.R., 2018. Position and Content Paradigms in Genome Rearrangements. The Wild and Crazy World of Permutations in Genomics. BULLETIN OF MATHEMATICAL BIOLOGY, 80(12), p 3227-3246.
S. Bhatia, P. Feijão, and A.R. Francis, “Position and Content Paradigms in Genome Rearrangements. The Wild and Crazy World of Permutations in Genomics”, BULLETIN OF MATHEMATICAL BIOLOGY, vol. 80, 2018, pp. 3227-3246.
Bhatia, S., Feijão, P., Francis, A.R.: Position and Content Paradigms in Genome Rearrangements. The Wild and Crazy World of Permutations in Genomics. BULLETIN OF MATHEMATICAL BIOLOGY. 80, 3227-3246 (2018).
Bhatia, Sangeeta, Feijão, Pedro, and Francis, Andrew R. “Position and Content Paradigms in Genome Rearrangements. The Wild and Crazy World of Permutations in Genomics”. BULLETIN OF MATHEMATICAL BIOLOGY 80.12 (2018): 3227-3246.

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