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In silico evo-devo: reconstructing stages in the evolution of animal segmentation.

Vroomans RM, Hogeweg P, Ten Tusscher KH.

Evodevo. 2016 Aug 1;7:14. doi: 10.1186/s13227-016-0052-8. eCollection 2016.


Evolutionarily stable disequilibrium: endless dynamics of evolution in a stationary population.

Takeuchi N, Kaneko K, Hogeweg P.

Proc Biol Sci. 2016 May 11;283(1830). pii: 20153109. doi: 10.1098/rspb.2015.3109.


Parasites Sustain and Enhance RNA-Like Replicators through Spatial Self-Organisation.

Colizzi ES, Hogeweg P.

PLoS Comput Biol. 2016 Apr 27;12(4):e1004902. doi: 10.1371/journal.pcbi.1004902. eCollection 2016 Apr.


High cost enhances cooperation through the interplay between evolution and self-organisation.

Colizzi ES, Hogeweg P.

BMC Evol Biol. 2016 Feb 1;16:31. doi: 10.1186/s12862-016-0600-9.


In Silico Gene-Level Evolution Explains Microbial Population Diversity through Differential Gene Mobility.

van Dijk B, Hogeweg P.

Genome Biol Evol. 2015 Dec 28;8(1):176-88. doi: 10.1093/gbe/evv255.


Segment-specific adhesion as a driver of convergent extension.

Vroomans RM, Hogeweg P, ten Tusscher KH.

PLoS Comput Biol. 2015 Feb 23;11(2):e1004092. doi: 10.1371/journal.pcbi.1004092. eCollection 2015 Feb.


Mutation rates and evolution of multiple coding in RNA-based protocells.

de Boer FK, Hogeweg P.

J Mol Evol. 2014 Dec;79(5-6):193-203. doi: 10.1007/s00239-014-9648-6. Epub 2014 Oct 4.


Evolution of functional diversification within quasispecies.

Colizzi ES, Hogeweg P.

Genome Biol Evol. 2014 Jul 22;6(8):1990-2007. doi: 10.1093/gbe/evu150.


A synergism between adaptive effects and evolvability drives whole genome duplication to fixation.

Cuypers TD, Hogeweg P.

PLoS Comput Biol. 2014 Apr 17;10(4):e1003547. doi: 10.1371/journal.pcbi.1003547. eCollection 2014 Apr.


Toward a theory of multilevel evolution: long-term information integration shapes the mutational landscape and enhances evolvability.

Hogeweg P.

Adv Exp Med Biol. 2012;751:195-224. doi: 10.1007/978-1-4614-3567-9_10. Review.


Evolutionary dynamics of RNA-like replicator systems: A bioinformatic approach to the origin of life.

Takeuchi N, Hogeweg P.

Phys Life Rev. 2012 Sep;9(3):219-63. doi: 10.1016/j.plrev.2012.06.001. Epub 2012 Jun 13. Review.


Morphogengineering roots: comparing mechanisms of morphogen gradient formation.

Grieneisen VA, Scheres B, Hogeweg P, M Marée AF.

BMC Syst Biol. 2012 May 14;6:37. doi: 10.1186/1752-0509-6-37.


Less can be more: RNA-adapters may enhance coding capacity of replicators.

de Boer FK, Hogeweg P.

PLoS One. 2012;7(1):e29952. doi: 10.1371/journal.pone.0029952. Epub 2012 Jan 23.


Virtual genomes in flux: an interplay of neutrality and adaptability explains genome expansion and streamlining.

Cuypers TD, Hogeweg P.

Genome Biol Evol. 2012;4(3):212-29. doi: 10.1093/gbe/evr141. Epub 2012 Jan 10.


Evolution of networks for body plan patterning; interplay of modularity, robustness and evolvability.

Ten Tusscher KH, Hogeweg P.

PLoS Comput Biol. 2011 Oct;7(10):e1002208. doi: 10.1371/journal.pcbi.1002208. Epub 2011 Oct 6.


Modelling the dynamics of viral suppressors of RNA silencing.

Groenenboom MA, Hogeweg P.

J R Soc Interface. 2012 Mar 7;9(68):436-47. doi: 10.1098/rsif.2011.0361. Epub 2011 Aug 17.


Is RNA-dependent RNA polymerase essential for transposon control?

Crombach A, Hogeweg P.

BMC Syst Biol. 2011 Jun 29;5:104. doi: 10.1186/1752-0509-5-104.


The roots of bioinformatics in theoretical biology.

Hogeweg P.

PLoS Comput Biol. 2011 Mar;7(3):e1002021. doi: 10.1371/journal.pcbi.1002021. Epub 2011 Mar 31.


On the origin of DNA genomes: evolution of the division of labor between template and catalyst in model replicator systems.

Takeuchi N, Hogeweg P, Koonin EV.

PLoS Comput Biol. 2011 Mar;7(3):e1002024. doi: 10.1371/journal.pcbi.1002024. Epub 2011 Mar 24.

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