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Results: 1 to 20 of 44

1.

A time and space complexity reduction for coevolutionary analysis of trees generated under both a Yule and Uniform model.

Drinkwater B, Charleston MA.

Comput Biol Chem. 2015 Feb 11. pii: S1476-9271(15)00020-1. doi: 10.1016/j.compbiolchem.2015.02.003. [Epub ahead of print]

PMID:
25861917
2.

Evolving nutritional strategies in the presence of competition: a geometric agent-based model.

Senior AM, Charleston MA, Lihoreau M, Buhl J, Raubenheimer D, Simpson SJ.

PLoS Comput Biol. 2015 Mar 27;11(3):e1004111. doi: 10.1371/journal.pcbi.1004111. eCollection 2015 Mar.

3.

Node Handprinting: A Scalable and Accurate Algorithm for Aligning Multiple Biological Networks.

Radu A, Charleston M.

J Comput Biol. 2015 Feb 19. [Epub ahead of print]

PMID:
25695597
4.

Nutritional ecology beyond the individual: a conceptual framework for integrating nutrition and social interactions.

Lihoreau M, Buhl J, Charleston MA, Sword GA, Raubenheimer D, Simpson SJ.

Ecol Lett. 2015 Mar;18(3):273-86. doi: 10.1111/ele.12406. Epub 2015 Jan 14.

5.

Introducing TreeCollapse: a novel greedy algorithm to solve the cophylogeny reconstruction problem.

Drinkwater B, Charleston MA.

BMC Bioinformatics. 2014;15 Suppl 16:S14. doi: 10.1186/1471-2105-15-S16-S14. Epub 2014 Dec 8.

6.

Simple, rapid and accurate genotyping-by-sequencing from aligned whole genomes with ArrayMaker.

Willet CE, Haase B, Charleston MA, Wade CM.

Bioinformatics. 2015 Feb 15;31(4):599-601. doi: 10.1093/bioinformatics/btu691. Epub 2014 Oct 21.

PMID:
25336502
7.

Node fingerprinting: an efficient heuristic for aligning biological networks.

Radu A, Charleston M.

J Comput Biol. 2014 Oct;21(10):760-70. doi: 10.1089/cmb.2014.0114. Epub 2014 Aug 22.

PMID:
25148127
8.

Modelling nutrition across organizational levels: from individuals to superorganisms.

Lihoreau M, Buhl J, Charleston MA, Sword GA, Raubenheimer D, Simpson SJ.

J Insect Physiol. 2014 Oct;69:2-11. doi: 10.1016/j.jinsphys.2014.03.004. Epub 2014 Mar 28.

PMID:
24681322
9.

A simple model explains the dynamics of preferential host switching among mammal RNA viruses.

Cuthill JH, Charleston MA.

Evolution. 2013 Apr;67(4):980-90. doi: 10.1111/evo.12064. Epub 2013 Feb 19.

PMID:
23550750
10.

Active subnetwork recovery with a mechanism-dependent scoring function; with application to angiogenesis and organogenesis studies.

Lichtenstein I, Charleston MA, Caetano TS, Gamble JR, Vadas MA.

BMC Bioinformatics. 2013 Feb 21;14:59. doi: 10.1186/1471-2105-14-59.

11.

Phylogenetic codivergence supports coevolution of mimetic Heliconius butterflies.

Cuthill JH, Charleston M.

PLoS One. 2012;7(5):e36464. doi: 10.1371/journal.pone.0036464. Epub 2012 May 7.

12.

Verification of phylogenetic inference programs using metamorphic testing.

Sadi MS, Kuo FC, Ho JW, Charleston MA, Chen TY.

J Bioinform Comput Biol. 2011 Dec;9(6):729-47.

PMID:
22084011
13.

Evolution of endogenous retroviruses in the Suidae: evidence for different viral subpopulations in African and Eurasian host species.

Nascimento FF, Gongora J, Charleston M, Tristem M, Lowden S, Moran C.

BMC Evol Biol. 2011 May 24;11:139. doi: 10.1186/1471-2148-11-139.

14.

Hierarchical kernel mixture models for the prediction of AIDS disease progression using HIV structural gp120 profiles.

Yoo PD, Shwen Ho Y, Ng J, Charleston M, Saksena NK, Yang P, Zomaya AY.

BMC Genomics. 2010 Dec 2;11 Suppl 4:S22. doi: 10.1186/1471-2164-11-S4-S22.

15.

A model selection approach to discover age-dependent gene expression patterns using quantile regression models.

Ho JW, Stefani M, dos Remedios CG, Charleston MA.

BMC Genomics. 2009 Dec 3;10 Suppl 3:S16. doi: 10.1186/1471-2164-10-S3-S16.

16.

Phylogenetic estimation with partial likelihood tensors.

Sumner JG, Charleston MA.

J Theor Biol. 2010 Feb 7;262(3):413-24. doi: 10.1016/j.jtbi.2009.09.037. Epub 2009 Oct 12.

PMID:
19822153
17.

Insights into the evolutionary history of an emerging livestock pathogen: porcine circovirus 2.

Firth C, Charleston MA, Duffy S, Shapiro B, Holmes EC.

J Virol. 2009 Dec;83(24):12813-21. doi: 10.1128/JVI.01719-09. Epub 2009 Oct 7.

18.

Modelling nutritional interactions: from individuals to communities.

Simpson SJ, Raubenheimer D, Charleston MA, Clissold FJ; ARC-NZ Vegetation Function Network Herbivory Working Group.

Trends Ecol Evol. 2010 Jan;25(1):53-60. doi: 10.1016/j.tree.2009.06.012. Epub 2009 Aug 13. Review.

PMID:
19683361
19.

On the computational complexity of the reticulate cophylogeny reconstruction problem.

Libeskind-Hadas R, Charleston MA.

J Comput Biol. 2009 Jan;16(1):105-17. doi: 10.1089/cmb.2008.0084.

PMID:
19119995
20.

Hantavirus evolution in relation to its rodent and insectivore hosts: no evidence for codivergence.

Ramsden C, Holmes EC, Charleston MA.

Mol Biol Evol. 2009 Jan;26(1):143-53. doi: 10.1093/molbev/msn234. Epub 2008 Oct 14.

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