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Results: 1 to 20 of 90

1.

Are there rearrangement hotspots in the human genome?

Alekseyev MA, Pevzner PA.

PLoS Comput Biol. 2007 Nov;3(11):e209. Epub 2007 Sep 14.

PMID:
17997591
[PubMed - indexed for MEDLINE]
Free PMC Article
2.

Human and mouse genomic sequences reveal extensive breakpoint reuse in mammalian evolution.

Pevzner P, Tesler G.

Proc Natl Acad Sci U S A. 2003 Jun 24;100(13):7672-7. Epub 2003 Jun 16.

PMID:
12810957
[PubMed - indexed for MEDLINE]
Free PMC Article
3.

The fragile breakage versus random breakage models of chromosome evolution.

Peng Q, Pevzner PA, Tesler G.

PLoS Comput Biol. 2006 Feb;2(2):e14. Epub 2006 Feb 24.

PMID:
16501665
[PubMed - indexed for MEDLINE]
Free PMC Article
4.

Multi-break rearrangements and breakpoint re-uses: from circular to linear genomes.

Alekseyev MA.

J Comput Biol. 2008 Oct;15(8):1117-31. doi: 10.1089/cmb.2008.0080.

PMID:
18788907
[PubMed - indexed for MEDLINE]
5.

Genome-wide signatures of 'rearrangement hotspots' within segmental duplications in humans.

Uddin M, Sturge M, Peddle L, O'Rielly DD, Rahman P.

PLoS One. 2011;6(12):e28853. doi: 10.1371/journal.pone.0028853. Epub 2011 Dec 14.

PMID:
22194928
[PubMed - indexed for MEDLINE]
Free PMC Article
6.

MCMC genome rearrangement.

Miklós I.

Bioinformatics. 2003 Oct;19 Suppl 2:ii130-7.

PMID:
14534182
[PubMed - indexed for MEDLINE]
Free Article
7.

Comparative genomics reveals birth and death of fragile regions in mammalian evolution.

Alekseyev MA, Pevzner PA.

Genome Biol. 2010;11(11):R117. doi: 10.1186/gb-2010-11-11-r117. Epub 2010 Nov 30.

PMID:
21118492
[PubMed - indexed for MEDLINE]
Free PMC Article
8.

Inferring horizontal transfers in the presence of rearrangements by the minimum evolution criterion.

Birin H, Gal-Or Z, Elias I, Tuller T.

Bioinformatics. 2008 Mar 15;24(6):826-32. doi: 10.1093/bioinformatics/btn024. Epub 2008 Jan 18.

PMID:
18203769
[PubMed - indexed for MEDLINE]
Free Article
9.

Reconstructing contiguous regions of an ancestral genome.

Ma J, Zhang L, Suh BB, Raney BJ, Burhans RC, Kent WJ, Blanchette M, Haussler D, Miller W.

Genome Res. 2006 Dec;16(12):1557-65. Epub 2006 Sep 18.

PMID:
16983148
[PubMed - indexed for MEDLINE]
Free PMC Article
10.

The role of gene conversion in preserving rearrangement hotspots in the human genome.

Fawcett JA, Innan H.

Trends Genet. 2013 Oct;29(10):561-8. doi: 10.1016/j.tig.2013.07.002. Epub 2013 Aug 13.

PMID:
23953668
[PubMed - indexed for MEDLINE]
11.

Polyploids, genome halving and phylogeny.

Sankoff D, Zheng C, Zhu Q.

Bioinformatics. 2007 Jul 1;23(13):i433-9.

PMID:
17646328
[PubMed - indexed for MEDLINE]
Free Article
12.

Genome-scale evolution: reconstructing gene orders in the ancestral species.

Bourque G, Pevzner PA.

Genome Res. 2002 Jan;12(1):26-36.

PMID:
11779828
[PubMed - indexed for MEDLINE]
Free PMC Article
13.

Comparative analysis of chicken chromosome 28 provides new clues to the evolutionary fragility of gene-rich vertebrate regions.

Gordon L, Yang S, Tran-Gyamfi M, Baggott D, Christensen M, Hamilton A, Crooijmans R, Groenen M, Lucas S, Ovcharenko I, Stubbs L.

Genome Res. 2007 Nov;17(11):1603-13. Epub 2007 Oct 5.

PMID:
17921355
[PubMed - indexed for MEDLINE]
Free PMC Article
14.

Comparative genome sequencing of Drosophila pseudoobscura: chromosomal, gene, and cis-element evolution.

Richards S, Liu Y, Bettencourt BR, Hradecky P, Letovsky S, Nielsen R, Thornton K, Hubisz MJ, Chen R, Meisel RP, Couronne O, Hua S, Smith MA, Zhang P, Liu J, Bussemaker HJ, van Batenburg MF, Howells SL, Scherer SE, Sodergren E, Matthews BB, Crosby MA, Schroeder AJ, Ortiz-Barrientos D, Rives CM, Metzker ML, Muzny DM, Scott G, Steffen D, Wheeler DA, Worley KC, Havlak P, Durbin KJ, Egan A, Gill R, Hume J, Morgan MB, Miner G, Hamilton C, Huang Y, Waldron L, Verduzco D, Clerc-Blankenburg KP, Dubchak I, Noor MA, Anderson W, White KP, Clark AG, Schaeffer SW, Gelbart W, Weinstock GM, Gibbs RA.

Genome Res. 2005 Jan;15(1):1-18.

PMID:
15632085
[PubMed - indexed for MEDLINE]
Free PMC Article
15.

Genome halving with double cut and join.

Warren R, Sankoff D.

J Bioinform Comput Biol. 2009 Apr;7(2):357-71.

PMID:
19340920
[PubMed - indexed for MEDLINE]
16.

Origins of chromosomal rearrangement hotspots in the human genome: evidence from the AZFa deletion hotspots.

Hurles ME, Willey D, Matthews L, Hussain SS.

Genome Biol. 2004;5(8):R55. Epub 2004 Jul 14.

PMID:
15287977
[PubMed - indexed for MEDLINE]
Free PMC Article
17.

Analysis of fine-scale mammalian evolutionary breakpoints provides new insight into their relation to genome organisation.

Lemaitre C, Zaghloul L, Sagot MF, Gautier C, Arneodo A, Tannier E, Audit B.

BMC Genomics. 2009 Jul 24;10:335. doi: 10.1186/1471-2164-10-335.

PMID:
19630943
[PubMed - indexed for MEDLINE]
Free PMC Article
18.

The rise and fall of breakpoint reuse depending on genome resolution.

Attie O, Darling AE, Yancopoulos S.

BMC Bioinformatics. 2011 Oct 5;12 Suppl 9:S1. doi: 10.1186/1471-2105-12-S9-S1.

PMID:
22151330
[PubMed - indexed for MEDLINE]
Free PMC Article
19.

Evolution under reversals: parsimony and conservation of common intervals.

Diekmann Y, Sagot MF, Tannier E.

IEEE/ACM Trans Comput Biol Bioinform. 2007 Apr-Jun;4(2):301-9.

PMID:
17473322
[PubMed - indexed for MEDLINE]
20.

Comparative architectures of mammalian and chicken genomes reveal highly variable rates of genomic rearrangements across different lineages.

Bourque G, Zdobnov EM, Bork P, Pevzner PA, Tesler G.

Genome Res. 2005 Jan;15(1):98-110. Epub 2004 Dec 8.

PMID:
15590940
[PubMed - indexed for MEDLINE]
Free PMC Article

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