On the distribution of cycles and paths in multichromosomal breakpoint graphs and the expected value of rearrangement distance

Feijão P, Martinez F, Thévenin A (2015)
BMC Bioinformatics 16(Suppl 19): S1.

Download
OA 880.77 KB
Zeitschriftenaufsatz | Veröffentlicht | Englisch
Volltext vorhanden für diesen Nachweis
Autor
; ;
Abstract / Bemerkung
Finding the smallest sequence of operations to transform one genome into another is an important problem in comparative genomics. The breakpoint graph is a discrete structure that has proven to be effective in solving distance problems, and the number of cycles in a cycle decomposition of this graph is one of the remarkable parameters to help in the solution of related problems. For a fixed k, the number of linear unichromosomal genomes (signed or unsigned) with n elements such that the induced breakpoint graphs have k disjoint cycles, known as the Hultman number, has been already determined. In this work we extend these results to multichromosomal genomes, providing formulas to compute the number of multichromosal genomes having a fixed number of cycles and/or paths. We obtain an explicit formula for circular multichromosomal genomes and recurrences for general multichromosomal genomes, and discuss how these series can be used to calculate the distribution and expected value of the rearrangement distance between random genomes.
Erscheinungsjahr
Zeitschriftentitel
BMC Bioinformatics
Band
16
Ausgabe
Suppl 19
Art.-Nr.
S1
ISSN
Finanzierungs-Informationen
Article Processing Charge funded by the Deutsche Forschungsgemeinschaft and the Open Access Publication Fund of Bielefeld University.
PUB-ID

Zitieren

Feijão P, Martinez F, Thévenin A. On the distribution of cycles and paths in multichromosomal breakpoint graphs and the expected value of rearrangement distance. BMC Bioinformatics. 2015;16(Suppl 19): S1.
Feijão, P., Martinez, F., & Thévenin, A. (2015). On the distribution of cycles and paths in multichromosomal breakpoint graphs and the expected value of rearrangement distance. BMC Bioinformatics, 16(Suppl 19), S1. doi:10.1186/1471-2105-16-s19-s1
Feijão, P., Martinez, F., and Thévenin, A. (2015). On the distribution of cycles and paths in multichromosomal breakpoint graphs and the expected value of rearrangement distance. BMC Bioinformatics 16:S1.
Feijão, P., Martinez, F., & Thévenin, A., 2015. On the distribution of cycles and paths in multichromosomal breakpoint graphs and the expected value of rearrangement distance. BMC Bioinformatics, 16(Suppl 19): S1.
P. Feijão, F. Martinez, and A. Thévenin, “On the distribution of cycles and paths in multichromosomal breakpoint graphs and the expected value of rearrangement distance”, BMC Bioinformatics, vol. 16, 2015, : S1.
Feijão, P., Martinez, F., Thévenin, A.: On the distribution of cycles and paths in multichromosomal breakpoint graphs and the expected value of rearrangement distance. BMC Bioinformatics. 16, : S1 (2015).
Feijão, Pedro, Martinez, Fábio, and Thévenin, Annelyse. “On the distribution of cycles and paths in multichromosomal breakpoint graphs and the expected value of rearrangement distance”. BMC Bioinformatics 16.Suppl 19 (2015): S1.
Alle Dateien verfügbar unter der/den folgenden Lizenz(en):
Copyright Statement:
This Item is protected by copyright and/or related rights. [...]
Volltext(e)
Access Level
OA Open Access
Zuletzt Hochgeladen
2016-02-24T12:44:08Z

1 Zitation in Europe PMC

Daten bereitgestellt von Europe PubMed Central.

readat: An R package for reading and working with SomaLogic ADAT files.
Cotton RJ, Graumann J., BMC Bioinformatics 17(1), 2016
PMID: 27146037

12 References

Daten bereitgestellt von Europe PubMed Central.


AUTHOR UNKNOWN, 2009
Genome rearrangements and sorting by reversals
AUTHOR UNKNOWN, 1996
On Hultman numbers
AUTHOR UNKNOWN, 2007
The distribution of cycles in breakpoint graphs of signed permutations
AUTHOR UNKNOWN, 2013
A unifying view of genome rearrangements
AUTHOR UNKNOWN, 2006

AUTHOR UNKNOWN, 1994
Finite, closed-form expressions for the partition function and for Euler, Bernoulli, and Stirling numbers
AUTHOR UNKNOWN, 0

AUTHOR UNKNOWN, 2014
Efficient sorting of genomic permutations by translocation, inversion and block interchange.
Yancopoulos S, Attie O, Friedberg R., Bioinformatics 21(16), 2005
PMID: 15951307
A unifying view of genome rearrangements
AUTHOR UNKNOWN, 2006
Extending the algebraic formalism for genome rearrangements to include linear chromosomes.
Feijao P, Meidanis J., IEEE/ACM Trans Comput Biol Bioinform 10(4), 2013
PMID: 24334378
SNPtoGO: characterizing SNPs by enriched GO terms.
Schwarz DF, Hadicke O, Erdmann J, Ziegler A, Bayer D, Moller S., Bioinformatics 24(1), 2007
PMID: 18024970

Export

Markieren/ Markierung löschen
Markierte Publikationen

Open Data PUB

Web of Science

Dieser Datensatz im Web of Science®

Quellen

PMID: 26695008
PubMed | Europe PMC

Suchen in

Google Scholar