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Items: 31

1.

Why plants make puzzle cells, and how their shape emerges.

Sapala A, Runions A, Routier-Kierzkowska AL, Das Gupta M, Hong L, Hofhuis H, Verger S, Mosca G, Li CB, Hay A, Hamant O, Roeder AH, Tsiantis M, Prusinkiewicz P, Smith RS.

Elife. 2018 Feb 27;7. pii: e32794. doi: 10.7554/eLife.32794.

2.

The use of plant models in deep learning: an application to leaf counting in rosette plants.

Ubbens J, Cieslak M, Prusinkiewicz P, Stavness I.

Plant Methods. 2018 Jan 18;14:6. doi: 10.1186/s13007-018-0273-z. eCollection 2018.

3.

Crops In Silico: Generating Virtual Crops Using an Integrative and Multi-scale Modeling Platform.

Marshall-Colon A, Long SP, Allen DK, Allen G, Beard DA, Benes B, von Caemmerer S, Christensen AJ, Cox DJ, Hart JC, Hirst PM, Kannan K, Katz DS, Lynch JP, Millar AJ, Panneerselvam B, Price ND, Prusinkiewicz P, Raila D, Shekar RG, Shrivastava S, Shukla D, Srinivasan V, Stitt M, Turk MJ, Voit EO, Wang Y, Yin X, Zhu XG.

Front Plant Sci. 2017 May 15;8:786. doi: 10.3389/fpls.2017.00786. eCollection 2017.

4.

A common developmental program can produce diverse leaf shapes.

Runions A, Tsiantis M, Prusinkiewicz P.

New Phytol. 2017 Oct;216(2):401-418. doi: 10.1111/nph.14449. Epub 2017 Mar 1.

5.

A Model of Differential Growth-Guided Apical Hook Formation in Plants.

Žádníková P, Wabnik K, Abuzeineh A, Gallemi M, Van Der Straeten D, Smith RS, Inzé D, Friml J, Prusinkiewicz P, Benková E.

Plant Cell. 2016 Oct;28(10):2464-2477. Epub 2016 Oct 17.

6.

Auxin-driven patterning with unidirectional fluxes.

Cieslak M, Runions A, Prusinkiewicz P.

J Exp Bot. 2015 Aug;66(16):5083-102. doi: 10.1093/jxb/erv262. Epub 2015 Jun 27.

7.

Modelling biomechanics of bark patterning in grasstrees.

Dale H, Runions A, Hobill D, Prusinkiewicz P.

Ann Bot. 2014 Sep;114(4):629-41.

8.

Genetic control of plant development by overriding a geometric division rule.

Yoshida S, Barbier de Reuille P, Lane B, Bassel GW, Prusinkiewicz P, Smith RS, Weijers D.

Dev Cell. 2014 Apr 14;29(1):75-87. doi: 10.1016/j.devcel.2014.02.002. Epub 2014 Mar 27.

9.

A division in PIN-mediated auxin patterning during organ initiation in grasses.

O'Connor DL, Runions A, Sluis A, Bragg J, Vogel JP, Prusinkiewicz P, Hake S.

PLoS Comput Biol. 2014 Jan 30;10(1):e1003447. doi: 10.1371/journal.pcbi.1003447. eCollection 2014 Jan.

10.

An intracellular partitioning-based framework for tissue cell polarity in plants and animals.

Abley K, De Reuille PB, Strutt D, Bangham A, Prusinkiewicz P, Marée AF, Grieneisen VA, Coen E.

Development. 2013 May;140(10):2061-74. doi: 10.1242/dev.062984.

11.

The interplay between inflorescence development and function as the crucible of architectural diversity.

Harder LD, Prusinkiewicz P.

Ann Bot. 2013 Nov;112(8):1477-93. doi: 10.1093/aob/mcs252. Epub 2012 Dec 13. Review.

12.

L-py: an L-system simulation framework for modeling plant architecture development based on a dynamic language.

Boudon F, Pradal C, Cokelaer T, Prusinkiewicz P, Godin C.

Front Plant Sci. 2012 May 30;3:76. doi: 10.3389/fpls.2012.00076. eCollection 2012.

13.

Computational models of plant development and form.

Prusinkiewicz P, Runions A.

New Phytol. 2012 Feb;193(3):549-69. doi: 10.1111/j.1469-8137.2011.04009.x. Review.

14.

Generation of spatial patterns through cell polarity switching.

Robinson S, Barbier de Reuille P, Chan J, Bergmann D, Prusinkiewicz P, Coen E.

Science. 2011 Sep 9;333(6048):1436-40. doi: 10.1126/science.1202185.

15.

Towards aspect-oriented functional--structural plant modelling.

Cieslak M, Seleznyova AN, Prusinkiewicz P, Hanan J.

Ann Bot. 2011 Oct;108(6):1025-41. doi: 10.1093/aob/mcr121. Epub 2011 Jul 1.

16.

Inherent randomness of cell division patterns.

Prusinkiewicz P.

Proc Natl Acad Sci U S A. 2011 Apr 12;108(15):5933-4. doi: 10.1073/pnas.1103212108. Epub 2011 Apr 4. No abstract available.

17.

Model for the regulation of Arabidopsis thaliana leaf margin development.

Bilsborough GD, Runions A, Barkoulas M, Jenkins HW, Hasson A, Galinha C, Laufs P, Hay A, Prusinkiewicz P, Tsiantis M.

Proc Natl Acad Sci U S A. 2011 Feb 22;108(8):3424-9. doi: 10.1073/pnas.1015162108. Epub 2011 Feb 7.

18.

Constraints of space in plant development.

Prusinkiewicz P, Barbier de Reuille P.

J Exp Bot. 2010 May;61(8):2117-29. doi: 10.1093/jxb/erq081. Epub 2010 Apr 13. Review.

PMID:
20388746
19.

Control of bud activation by an auxin transport switch.

Prusinkiewicz P, Crawford S, Smith RS, Ljung K, Bennett T, Ongaro V, Leyser O.

Proc Natl Acad Sci U S A. 2009 Oct 13;106(41):17431-6. doi: 10.1073/pnas.0906696106. Epub 2009 Sep 24.

20.

Integration of transport-based models for phyllotaxis and midvein formation.

Bayer EM, Smith RS, Mandel T, Nakayama N, Sauer M, Prusinkiewicz P, Kuhlemeier C.

Genes Dev. 2009 Feb 1;23(3):373-84. doi: 10.1101/gad.497009.

21.

Passing the El Greco test.

Prusinkiewicz P, Coen E.

HFSP J. 2007 Sep;1(3):152-5. doi: 10.2976/1.2776103. Epub 2007 Sep 4.

22.

Stochastic P systems and the simulation of biochemical processes with dynamic compartments.

Spicher A, Michel O, Cieslak M, Giavitto JL, Prusinkiewicz P.

Biosystems. 2008 Mar;91(3):458-72. Epub 2007 Jul 17. Review.

PMID:
17728055
23.

Evolution and development of inflorescence architectures.

Prusinkiewicz P, Erasmus Y, Lane B, Harder LD, Coen E.

Science. 2007 Jun 8;316(5830):1452-6. Epub 2007 May 24.

24.

Towards the systems biology of auxin-transport-mediated patterning.

Berleth T, Scarpella E, Prusinkiewicz P.

Trends Plant Sci. 2007 Apr;12(4):151-9. Epub 2007 Mar 26. Review.

PMID:
17368963
25.

A plausible model of phyllotaxis.

Smith RS, Guyomarc'h S, Mandel T, Reinhardt D, Kuhlemeier C, Prusinkiewicz P.

Proc Natl Acad Sci U S A. 2006 Jan 31;103(5):1301-6. Epub 2006 Jan 23.

26.

Modeling plant morphogenesis.

Prusinkiewicz P, Rolland-Lagan AG.

Curr Opin Plant Biol. 2006 Feb;9(1):83-8. Epub 2005 Dec 22. Review.

PMID:
16376602
27.
28.

Quantitative modeling of Arabidopsis development.

Mündermann L, Erasmus Y, Lane B, Coen E, Prusinkiewicz P.

Plant Physiol. 2005 Oct;139(2):960-8. Epub 2005 Sep 23.

29.
30.

The genetics of geometry.

Coen E, Rolland-Lagan AG, Matthews M, Bangham JA, Prusinkiewicz P.

Proc Natl Acad Sci U S A. 2004 Apr 6;101(14):4728-35. Epub 2004 Feb 11.

31.

Modeling plant growth and development.

Prusinkiewicz P.

Curr Opin Plant Biol. 2004 Feb;7(1):79-83. Review.

PMID:
14732445

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