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Results: 1 to 20 of 96

1.

Bacterial syntenies: an exact approach with gene quorum.

Deniélou YP, Sagot MF, Boyer F, Viari A.

BMC Bioinformatics. 2011 May 24;12:193. doi: 10.1186/1471-2105-12-193.

PMID:
21605461
[PubMed - indexed for MEDLINE]
Free PMC Article
2.

Assessing the evolutionary rate of positional orthologous genes in prokaryotes using synteny data.

Lemoine F, Lespinet O, Labedan B.

BMC Evol Biol. 2007 Nov 29;7:237.

PMID:
18047665
[PubMed - indexed for MEDLINE]
Free PMC Article
3.

i-ADHoRe 3.0--fast and sensitive detection of genomic homology in extremely large data sets.

Proost S, Fostier J, De Witte D, Dhoedt B, Demeester P, Van de Peer Y, Vandepoele K.

Nucleic Acids Res. 2012 Jan;40(2):e11. doi: 10.1093/nar/gkr955. Epub 2011 Nov 18.

PMID:
22102584
[PubMed - indexed for MEDLINE]
Free PMC Article
4.

SynteBase/SynteView: a tool to visualize gene order conservation in prokaryotic genomes.

Lemoine F, Labedan B, Lespinet O.

BMC Bioinformatics. 2008 Dec 16;9:536. doi: 10.1186/1471-2105-9-536.

PMID:
19087285
[PubMed - indexed for MEDLINE]
Free PMC Article
5.

Screening synteny blocks in pairwise genome comparisons through integer programming.

Tang H, Lyons E, Pedersen B, Schnable JC, Paterson AH, Freeling M.

BMC Bioinformatics. 2011 Apr 18;12:102. doi: 10.1186/1471-2105-12-102.

PMID:
21501495
[PubMed - indexed for MEDLINE]
Free PMC Article
6.

SyntTax: a web server linking synteny to prokaryotic taxonomy.

Oberto J.

BMC Bioinformatics. 2013 Jan 16;14:4. doi: 10.1186/1471-2105-14-4.

PMID:
23323735
[PubMed - indexed for MEDLINE]
Free PMC Article
7.

Cinteny: flexible analysis and visualization of synteny and genome rearrangements in multiple organisms.

Sinha AU, Meller J.

BMC Bioinformatics. 2007 Mar 8;8:82.

PMID:
17343765
[PubMed - indexed for MEDLINE]
Free PMC Article
8.

CYNTENATOR: progressive gene order alignment of 17 vertebrate genomes.

Rödelsperger C, Dieterich C.

PLoS One. 2010 Jan 28;5(1):e8861. doi: 10.1371/journal.pone.0008861.

PMID:
20126624
[PubMed - indexed for MEDLINE]
Free PMC Article
9.

Computational methods for Gene Orthology inference.

Kristensen DM, Wolf YI, Mushegian AR, Koonin EV.

Brief Bioinform. 2011 Sep;12(5):379-91. doi: 10.1093/bib/bbr030. Epub 2011 Jun 19.

PMID:
21690100
[PubMed - indexed for MEDLINE]
Free PMC Article
10.

Evaluating synteny for improved comparative studies.

Ghiurcuta CG, Moret BM.

Bioinformatics. 2014 Jun 15;30(12):i9-18. doi: 10.1093/bioinformatics/btu259.

PMID:
24932010
[PubMed - indexed for MEDLINE]
Free PMC Article
11.

Homologous synteny block detection based on suffix tree algorithms.

Chen YL, Chen CM, Pai TW, Leong HW, Chong KF.

J Bioinform Comput Biol. 2013 Dec;11(6):1343004. doi: 10.1142/S021972001343004X. Epub 2013 Dec 2.

PMID:
24372033
[PubMed - indexed for MEDLINE]
12.

Syntenator: multiple gene order alignments with a gene-specific scoring function.

Rödelsperger C, Dieterich C.

Algorithms Mol Biol. 2008 Nov 6;3:14. doi: 10.1186/1748-7188-3-14.

PMID:
18990215
[PubMed]
Free PMC Article
13.

Techniques for multi-genome synteny analysis to overcome assembly limitations.

Bhutkar A, Russo S, Smith TF, Gelbart WM.

Genome Inform. 2006;17(2):152-61.

PMID:
17503388
[PubMed - indexed for MEDLINE]
14.

SynChro: a fast and easy tool to reconstruct and visualize synteny blocks along eukaryotic chromosomes.

Drillon G, Carbone A, Fischer G.

PLoS One. 2014 Mar 20;9(3):e92621. doi: 10.1371/journal.pone.0092621. eCollection 2014.

PMID:
24651407
[PubMed - indexed for MEDLINE]
Free PMC Article
15.

Evolutionary, structural and functional relationships revealed by comparative analysis of syntenic genes in Rhizobiales.

Guerrero G, Peralta H, Aguilar A, Díaz R, Villalobos MA, Medrano-Soto A, Mora J.

BMC Evol Biol. 2005 Oct 17;5:55.

PMID:
16229745
[PubMed - indexed for MEDLINE]
Free PMC Article
16.

Identification of mammalian orthologs using local synteny.

Jun J, Mandoiu II, Nelson CE.

BMC Genomics. 2009 Dec 23;10:630. doi: 10.1186/1471-2164-10-630.

PMID:
20030836
[PubMed - indexed for MEDLINE]
Free PMC Article
17.

Domain team: synteny of domains is a new approach in comparative genomics.

Pasek S.

Methods Mol Biol. 2007;396:17-29.

PMID:
18025683
[PubMed - indexed for MEDLINE]
18.

Genome trees constructed using five different approaches suggest new major bacterial clades.

Wolf YI, Rogozin IB, Grishin NV, Tatusov RL, Koonin EV.

BMC Evol Biol. 2001 Oct 20;1:8.

PMID:
11734060
[PubMed - indexed for MEDLINE]
Free PMC Article
19.

Integrated maps in quail (Coturnix japonica) confirm the high degree of synteny conservation with chicken (Gallus gallus) despite 35 million years of divergence.

Kayang BB, Fillon V, Inoue-Murayama M, Miwa M, Leroux S, Fève K, Monvoisin JL, Pitel F, Vignoles M, Mouilhayrat C, Beaumont C, Ito S, Minvielle F, Vignal A.

BMC Genomics. 2006 May 2;7:101.

PMID:
16669996
[PubMed - indexed for MEDLINE]
Free PMC Article
20.

Genome alignment, evolution of prokaryotic genome organization, and prediction of gene function using genomic context.

Wolf YI, Rogozin IB, Kondrashov AS, Koonin EV.

Genome Res. 2001 Mar;11(3):356-72.

PMID:
11230160
[PubMed - indexed for MEDLINE]
Free Article
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