Format
Sort by
Items per page

Send to

Choose Destination

Links from PubMed

Items: 1 to 20 of 114

1.

On pairwise distances and median score of three genomes under DCJ.

Aganezov S Jr, Alekseyev MA.

BMC Bioinformatics. 2012;13 Suppl 19:S1. doi: 10.1186/1471-2105-13-S19-S1. Epub 2012 Dec 19.

2.

Restricted DCJ-indel model: sorting linear genomes with DCJ and indels.

da Silva PH, Machado R, Dantas S, Braga MD.

BMC Bioinformatics. 2012;13 Suppl 19:S14. doi: 10.1186/1471-2105-13-S19-S14. Epub 2012 Dec 19.

3.

Sorting Linear Genomes with Rearrangements and Indels.

Braga MD, Stoye J.

IEEE/ACM Trans Comput Biol Bioinform. 2015 May-Jun;12(3):500-6. doi: 10.1109/TCBB.2014.2329297.

PMID:
26357261
4.

Restricted DCJ model: rearrangement problems with chromosome reincorporation.

Kováč J, Warren R, Braga MD, Stoye J.

J Comput Biol. 2011 Sep;18(9):1231-41. doi: 10.1089/cmb.2011.0116.

PMID:
21899428
5.

An exact solver for the DCJ median problem.

Zhang M, Arndt W, Tang J.

Pac Symp Biocomput. 2009:138-49.

6.

Computation of perfect DCJ rearrangement scenarios with linear and circular chromosomes.

Bérard S, Chateau A, Chauve C, Paul C, Tannier E.

J Comput Biol. 2009 Oct;16(10):1287-309. doi: 10.1089/cmb.2009.0088.

PMID:
19803733
7.

Genome halving and double distance with losses.

Savard OT, Gagnon Y, Bertrand D, El-Mabrouk N.

J Comput Biol. 2011 Sep;18(9):1185-99. doi: 10.1089/cmb.2011.0136.

PMID:
21899424
8.

On the family-free DCJ distance and similarity.

Martinez FV, Feijão P, Braga MD, Stoye J.

Algorithms Mol Biol. 2015 Apr 1;10:13. doi: 10.1186/s13015-015-0041-9. eCollection 2015.

9.

Approximating the DCJ distance of balanced genomes in linear time.

Rubert DP, Feijão P, Braga MDV, Stoye J, Martinez FHV.

Algorithms Mol Biol. 2017 Mar 9;12:3. doi: 10.1186/s13015-017-0095-y. eCollection 2017.

10.

Moments of genome evolution by Double Cut-and-Join.

Biller P, Guéguen L, Tannier E.

BMC Bioinformatics. 2015;16 Suppl 14:S7. doi: 10.1186/1471-2105-16-S14-S7. Epub 2015 Oct 2.

11.

Algebraic double cut and join : A group-theoretic approach to the operator on multichromosomal genomes.

Bhatia S, Egri-Nagy A, Francis AR.

J Math Biol. 2015 Nov;71(5):1149-78. doi: 10.1007/s00285-014-0852-1. Epub 2014 Dec 11.

PMID:
25502846
12.

Estimating true evolutionary distances under the DCJ model.

Lin Y, Moret BM.

Bioinformatics. 2008 Jul 1;24(13):i114-22. doi: 10.1093/bioinformatics/btn148.

13.

Estimating true evolutionary distances under rearrangements, duplications, and losses.

Lin Y, Rajan V, Swenson KM, Moret BM.

BMC Bioinformatics. 2010 Jan 18;11 Suppl 1:S54. doi: 10.1186/1471-2105-11-S1-S54.

14.

SCJ: a breakpoint-like distance that simplifies several rearrangement problems.

Feijão P, Meidanis J.

IEEE/ACM Trans Comput Biol Bioinform. 2011 Sep-Oct;8(5):1318-29. doi: 10.1109/TCBB.2011.34.

PMID:
21339538
15.

A new genomic evolutionary model for rearrangements, duplications, and losses that applies across eukaryotes and prokaryotes.

Lin Y, Moret BM.

J Comput Biol. 2011 Sep;18(9):1055-64. doi: 10.1089/cmb.2011.0098.

PMID:
21899415
16.

An Exact Algorithm to Compute the Double-Cut-and-Join Distance for Genomes with Duplicate Genes.

Shao M, Lin Y, Moret BM.

J Comput Biol. 2015 May;22(5):425-35. doi: 10.1089/cmb.2014.0096. Epub 2014 Dec 17.

PMID:
25517208
17.

Pairwise alignment with rearrangements.

Vinh le S, Varón A, Wheeler WC.

Genome Inform. 2006;17(2):141-51.

PMID:
17503387
18.

Algorithms for sorting unsigned linear genomes by the DCJ operations.

Jiang H, Zhu B, Zhu D.

Bioinformatics. 2011 Feb 1;27(3):311-6. doi: 10.1093/bioinformatics/btq674. Epub 2010 Dec 6.

PMID:
21134895
19.

Multichromosomal median and halving problems under different genomic distances.

Tannier E, Zheng C, Sankoff D.

BMC Bioinformatics. 2009 Apr 22;10:120. doi: 10.1186/1471-2105-10-120.

20.

Median Approximations for Genomes Modeled as Matrices.

Zanetti JP, Biller P, Meidanis J.

Bull Math Biol. 2016 Apr;78(4):786-814. doi: 10.1007/s11538-016-0162-4. Epub 2016 Apr 12.

PMID:
27072561

Supplemental Content

Support Center