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Items: 1 to 20 of 72

1.

Exploiting genomic knowledge in optimising molecular breeding programmes: algorithms from evolutionary computing.

O'Hagan S, Knowles J, Kell DB.

PLoS One. 2012;7(11):e48862. doi: 10.1371/journal.pone.0048862. Epub 2012 Nov 21.

3.

Graph-based data selection for the construction of genomic prediction models.

Maenhout S, De Baets B, Haesaert G.

Genetics. 2010 Aug;185(4):1463-75. doi: 10.1534/genetics.110.116426. Epub 2010 May 17.

4.

Error thresholds in genetic algorithms.

Ochoa G.

Evol Comput. 2006 Summer;14(2):157-82.

PMID:
16831105
5.

Application of genomics to molecular breeding of wheat and barley.

Varshney RK, Langridge P, Graner A.

Adv Genet. 2007;58:121-55. Review.

PMID:
17452248
6.

In silico modelling of directed evolution: Implications for experimental design and stepwise evolution.

Wedge DC, Rowe W, Kell DB, Knowles J.

J Theor Biol. 2009 Mar 7;257(1):131-41. doi: 10.1016/j.jtbi.2008.11.005. Epub 2008 Nov 17.

PMID:
19073195
7.

Genetic algorithms and their application to in silico evolution of genetic regulatory networks.

Knabe JF, Wegner K, Nehaniv CL, Schilstra MJ.

Methods Mol Biol. 2010;673:297-321. doi: 10.1007/978-1-60761-842-3_19.

PMID:
20835807
8.

Efficient algorithms for reconstructing gene content by co-evolution.

Birin H, Tuller T.

BMC Bioinformatics. 2011 Oct 5;12 Suppl 9:S12. doi: 10.1186/1471-2105-12-S9-S12.

9.

MACSIMS: multiple alignment of complete sequences information management system.

Thompson JD, Muller A, Waterhouse A, Procter J, Barton GJ, Plewniak F, Poch O.

BMC Bioinformatics. 2006 Jun 23;7:318.

10.

Efficient algorithms for probing the RNA mutation landscape.

Waldispühl J, Devadas S, Berger B, Clote P.

PLoS Comput Biol. 2008 Aug 8;4(8):e1000124. doi: 10.1371/journal.pcbi.1000124.

11.

Population genomic analysis of model and nonmodel organisms using sequenced RAD tags.

Hohenlohe PA, Catchen J, Cresko WA.

Methods Mol Biol. 2012;888:235-60. doi: 10.1007/978-1-61779-870-2_14.

PMID:
22665285
12.

Evolutionary engineering by genome shuffling.

Biot-Pelletier D, Martin VJ.

Appl Microbiol Biotechnol. 2014 May;98(9):3877-87. doi: 10.1007/s00253-014-5616-8. Epub 2014 Mar 5. Review.

PMID:
24595425
13.

Making sense of the metabolome using evolutionary computation: seeing the wood with the trees.

Goodacre R.

J Exp Bot. 2005 Jan;56(410):245-54. Epub 2004 Dec 13. Review.

PMID:
15596480
14.

Evolutionary algorithms for the selection of single nucleotide polymorphisms.

Hubley RM, Zitzler E, Roach JC.

BMC Bioinformatics. 2003 Jul 23;4:30. Epub 2003 Jul 23.

15.

Evolutionary approaches for the reverse-engineering of gene regulatory networks: a study on a biologically realistic dataset.

Auliac C, Frouin V, Gidrol X, d'Alché-Buc F.

BMC Bioinformatics. 2008 Feb 8;9:91. doi: 10.1186/1471-2105-9-91.

16.

The role of duplications in the evolution of genomes highlights the need for evolutionary-based approaches in comparative genomics.

Levasseur A, Pontarotti P.

Biol Direct. 2011 Feb 18;6:11. doi: 10.1186/1745-6150-6-11. Review.

17.

OptFlux: an open-source software platform for in silico metabolic engineering.

Rocha I, Maia P, Evangelista P, Vilaça P, Soares S, Pinto JP, Nielsen J, Patil KR, Ferreira EC, Rocha M.

BMC Syst Biol. 2010 Apr 19;4:45. doi: 10.1186/1752-0509-4-45.

18.

Vestige: maximum likelihood phylogenetic footprinting.

Wakefield MJ, Maxwell P, Huttley GA.

BMC Bioinformatics. 2005 May 29;6:130.

19.

Systematic analysis of genomic organization and structure of long non-coding RNAs in the human genome.

Sun J, Zhou M, Mao ZT, Hao DP, Wang ZZ, Li CX.

FEBS Lett. 2013 Apr 2;587(7):976-82. doi: 10.1016/j.febslet.2013.02.036. Epub 2013 Feb 27.

20.

KiPar, a tool for systematic information retrieval regarding parameters for kinetic modelling of yeast metabolic pathways.

Spasic I, Simeonidis E, Messiha HL, Paton NW, Kell DB.

Bioinformatics. 2009 Jun 1;25(11):1404-11. doi: 10.1093/bioinformatics/btp175. Epub 2009 Mar 31.

PMID:
19336445

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