J.A. Kaandorp and J.E. Kuebler, The algorithmic beauty of seaweeds, sponges and corals, Springer-Verlag, Heidelberg, New York, 2001

J.A. Kaandorp. Fractal modelling: growth and form in biology. Springer-Verlag, Berlin, New York, 1994.

Refereed publications first author

[ 1 ] J.A. Kaandorp. Rocky substrate communities of the infralittoral
fringe of the Boulonnais coast, NW france: a quantitative survey.
Mar. Biol., 92:255--265, 1986.
2. J.A. Kaandorp. Interactive generation of fractal objects.
In G.~Marechal, editor, Proceedings of the European Computer
Graphics Conference, pages 181--196, Amsterdam, New York, 1987.
North-Holland.
3. J.A. Kaandorp. Modelling growth forms of sponges with fractal
techniques. In A.J. Crilly, R.A. Earnshaw, and H.~Jones, editors,
Fractals and chaos, pages 71--88, New York, Berlin, 1991.
Springer-Verlag.
[ 4 ] J.A. Kaandorp. Modelling growth forms of the sponge Haliclona
oculata (Porifera; Demospongiae) using fractal techniques.
Mar. Biol., 110:203--215, 1991.
5. J.A. Kaandorp. Modelling growth forms of biological objects
using fractals. PhD thesis, University of Amsterdam, 1992.
[ 6 ] J.A. Kaandorp and M.J. de Kluijver. Verification of fractal
growth models of the sponge Haliclona oculata (Porifera; class
Demospongiae) with transplantation experiments. Mar. Biol.,
113:133--143, 1992.
7. J.A. Kaandorp. 2D and 3D modelling of marine sessile organisms.
In A.J. Crilly, R.A. Earnshaw, and H.~Jones, editors, Applications
of fractals and chaos, pages 41--61, New York, Berlin, 1993.
Springer-Verlag.
8. J.A. Kaandorp. Fractal modelling of growth forms of the sponge
Haliclona oculata. In J. Demongeot and V. Capasso, editors,
Mathematics applied to biology and medicine, pages 104--106, Winnipeg,
Canada, 1993. Wuerz
9. J.A. Kaandorp. Simulating radiate accretive growth using iterative
geometric constructions. In E. Louis, L.M. Sander, P. Meakin, and
J.M. Garcia.Ruiz, editors, Growth patterns in physical sciences and
biology, pages 331--340, New York, 1993. Plenum Press.
[ 10 ] J.A. Kaandorp. Simulation of environmentally induced growth forms
in marine sessile organisms. Fractals, 1(3):375--379, 1993.
11. J.A. Kaandorp. Diffusion-limited growth of sponges.
In M. Hammel and P. Prusinkiewicz, editors, Visual models of
morphogenesis: a guided tour, section 6, 1994.
URL:http://www.cpsc.ucalgary.ca/projects/bmv/index.html.
12. J.A. Kaandorp. Diffusion limited radiate accretive growth.
In R.~Gruber and M.~Tomassini, editors, Physics Computing '94,
pages pp 281--284, Geneva, 1994. European Physical Society.
[ 13 ] J.A. Kaandorp. A formal description of radiate accretive growth.
J. Theor. Biol., 166:149--161, 1994.
14. J.A. Kaandorp. Fractal modelling: growth and form in biology.
Springer-Verlag, Berlin, New York, 1994.
15. J.A. Kaandorp. Growth models of sponges using geometric
modelling techniques. In R.W.M. van Soest, Th.M.G. van Kempen, and
J.C. Braekman, editors, Sponges in time and space, pages 235--240,
Rotterdam, 1994. Balkema.
16. J.A. Kaandorp. Simulation of environmentally induced growth forms
in marine sessile organisms. In T. Vicsek, M. Shlesinger, and
M. Matsushita, editors, Fractals in natural sciences, pages 96--100,
Singapore, 1994. World Scientific.
[ 17 ] J.A. Kaandorp. Analysis and synthesis of radiate accretive growth
in three dimensions. J. Theor. Biol., 175:39--55, 1995.
18. J.A. Kaandorp and P.M.A. Sloot. A parallel hybrid solver for
diffusion limited growth. In P. Fritzon and L.Finmo, editors, Parallel
Programming and Applications Proceedings of the Workshop on Parallel
Programming and Computation (ZEUS '95) and the 4th Nordic Transputer
Conference (NTUG '95), pages 254--258, Amsterdam, 1995. IOS Press, the Netherlands.
19. J.A. Kaandorp. Simulation of growth and form of sponges and corals and
the influence of the physical environment. In J. Dubois and N. Gershon,
editors, Modeling complex data for creating information: real and virtual
objects, pages 199-208, Berlin, 1996, Springer-Verlag.
[ 20 ] J.A. Kaandorp, C.Lowe, D.Frenkel, and P.M.A. Sloot.
The effect of nutrient diffusion and flow on coral morphology.
Phys. Rev. Lett., 77(11):2328--2331, 1996.
21. J.A. Kaandorp and P.M.A. Sloot. Modelling growth and form of marine
sessile suspension feeders. In: Advances in Computational Life Sciences
Vol. I M. T. Michalewicz (ed.) pp 129-132, CSIRO Publishing, Collingwood,
Australia, 1996
22. J.A. Kaandorp and P.M.A. Sloot. Parallel simulation of accretive
growth in 3-dimensions. BioSystems 44(3):181-192, 1997.
23. J.A. Kaandorp and P.M.A. Sloot. Modelling and simulation of accretive
growth and form on a parallel platform In: ASCI '96, Proceedings of the
second annual conference of the Advanced School for Computing and Imaging,
E.J.H. Kerckhoffs, P.M.A. Sloot, J.F.M. Tonino and A.M. Vossepoel (eds.),
pp 54-59, Advanced School for Computing and Imaging (ASCI), Delft, 1996
24. J.A. Kaandorp. Modelling and simulation of the effect of
diffusion and flow on growth processes, In: Proceedings 1996 CERN School
of Computing, C.E. Vandon (ed.), pp. 239-246, CERN European Organization for
Nuclear Research, Geneva, 1996.
25. J.A. Kaandorp and P.M.A. Sloot. A mesoscopic Model for simulating
and their Simulation conference, F. Karsch, B. Monien and H. Satz (eds),
pp 250-254, World Scientific, Singapore, 1997.
26. J.A. Kaandorp, Guest editorial EURO-VR Mini-conference '97: Virtual
reality in industry and research, Future Generation Computer Systems
14(3-4) (1998).
27. J.A. Kaandorp and P.M.A. Sloot. Growth and form of sponges and corals in a
moving fluid. In Pattern formation in biology, vison and dynamics
A. Carbone, M. Gromov and P.Pruzinkiewicz (eds.), pp. 24--41
World Scientific Publishing Company, Singapore, 2000.
[ 28 ] J.A. Kaandorp. Morphological analysis of growth forms
of branching marine sessile organisms along environmental gradients
Mar. Biol 134:295-306 (1999)
29. J.A. Kaandorp, (Guest editor) Thematic issue on Virtual Reality in
Industry and Research Future Generation Computer Systems 15: 467-536 (1999)
30. J.A. Kaandorp and J.E. Kuebler, The algorithmic beauty
of seaweeds, sponges and corals, Springer-Verlag,
Heidelberg, New York, 2001
[ 31 ] J A Kaandorp, P M A Sloot, Morphological models of radiate accretive
growth and the influence of hydrodynamics, J. Theor. Biol., 209:257-274,
2001
32. J.A. Kaandorp and S. Gueron, special issue Future Generation Computer
Systems on particle based modelling in biology, 17: (7) V-VI MAY 2001
33. J.A. Kaandorp. Modelling growth and form of stony corals
and the influence of hydrodynamics on suspension feeding,
541-547, Vol. I Proceedings 9th International Coral Reef Symposium
Bali, Indonesia, 2003.
[ 34 ] J.A. Kaandorp, E.A. Koopman, P.M.A. Sloot, R.P.M. Bak, M.J.A. Vermeij and
L.E.H. Lampmann Simulation and analysis of flow patterns around the scleractinian coral
Madracis mirabilis (Duchassaing and Michelotti). Phil. Trans. R. Soc. Lond. B
358 (1437): 1551 - 1557, 2003.
35. J.A. Kaandorp and R.A. Garcia Leiva Morphological analysis of two- and
three-dimensional images of branching sponges and corals
In: Morphometrics and their applications in Paleontology and Biology,
A.M.T. Elewa (Ed.), Springer-Verlag, pp 83-94, 2004.
[ 36 ] J.A. Kaandorp, P.M.A. Sloot, R.M.H. Merks, R.P.M. Bak, M.J.A. Vermeij,
and C. Maier Morphogenesis of the branching reef coral Madracis mirabilis,
Proc. Roy. Soc. B. 272:127-133, 2005
37. J.A. Kaandorp, R.P.M. Bak, M.J.A. Vermeij Modelling of nutrient gradients
in three-dimensional images - and simulated morphologies of a branching coral.
Proceedings 10th International Coral Reef Symposium
Okinawa, Japan
38. J.A. Kaandorp, Modelling the skeletal architecture in a sponge with
radiate accretive growth In: Biosilica in Evolution,
Morphogenesis and Nanobiotechnology: Case Study Lake Baikal
W.E.G. Müller and M.A.Grachev (eds.), Springer-Verlag, 2009
[ 39 ] J.A. Kaandorp, Book review: P. Pelce, New visions on growth and form:
fingering growth, dendrites, and flames, Mathematical Biosciences 210:700-702, 2007
40. J.A. Kaandorp, Exploring Theoretical Morphospaces,
Book review: The Geometry of Evolution: Adaptive Landscapes and
Theoretical Morphospaces. George R. McGhee., BioScience 58:271-273, 2008
[41 J.A. Kaandorp, J.G. Blom, J. Verhoef, M. Filatov,
M. Postma and W.E.G. Müller, Modelling genetic regulation of
growth and form in a branching sponge Proc. Roy. Soc. B. 275:2569-2577, 2008
41. J.A. Kaandorp, Modelling growth and form of sponges, In: From insect nest to
human architectures, Proc. of the International Workshop on Engineering Princples
of Innovation in swarm-made Architectures, G. Theraulaz, R. Sole and P. Kuntz (eds)
September, 2009, Venice, Italy
[ 42 J.A. Kaandorp, M. Filatov and N. Chindapol, Simulating and quantifying
the environmental influence on coral growth and form. In Coral Reefs: An Ecosystem in
Transition (Eds. Z. Dubinsky & N. Stambler). Part 3, 177-185, 2011, DOI: 10.1007/978-94-007-0114-4_11

Refereed publications co-authored

43. H.A. Lauwerier and J.A. Kaandorp. Fractals (mathematics, programming
and applications). In M.M. de~Ruiter, editor, Advances in computer graphics III,
pages 177--205, Berlin, New York, 1988. Springer-Verlag.
[ 44 ] H. McEvoy and J.A. Kaandorp. On modelling environmentally-sensitive
growth forms and cellular automata using multiset transformation.
Fractals, 4(4):509-520, 1996.
45. A. Schoneveld, J. F. de Ronde, P. M. A. Sloot and J. A. Kaandorp
A parallel cellular genetic algorithm used in finite element simulation
In: Parallel problem solving from nature - PPSN IV, H.M. Voigt,
W. Ebeling, I. Rechenberg and H.P. Schwefel (eds.), pp 533-542,
Springer-Verlag, Berlin, 1996.
46. C.P. Lowe and J.A. Kaandorp, Simulating the effect of fluid flow on
aggregation, Proceedings Sixth International Conference on Discrete
Models for Fluid Mechanics, Boston University, Boston, USA, 1996
47. P.M.A. Sloot, D. Frenkel, J.A. Kaandorp and R. van Driel,
Modelling and simulation of reactivity, diffusion, and flow in biological
systems using the lattice Boltzmann method, In: Biocomplexity and the
essence of the living state, R. van grondelle, S. van der Kolk, O.J.G. Somsen,
H.V. Westerhoff and J.E. Wijker, pp 80-82, Free University, Amsterdam, 1996.
48. P.M.A. Sloot and J.A. Kaandorp, Particle modelling environment for
dynamic complex system simulation, In: Biocomplexity and the
essence of the living state, R. van grondelle, S. van der Kolk, O.J.G. Somsen,
H.V. Westerhoff and J.E. Wijker, pp 83-85, Free University, Amsterdam, 1996.
49. P.M.A. Sloot, A. Schoneveld, J. F. de Ronde and J. A. Kaandorp
Large scale simulations of complex systems Part I: conceptual framework
SFI Working Paper: 97-07-070, 1997.
50. R.G. Belleman, J.A. Kaandorp and P.M.A. Sloot, A Virtual Environment
for the Exploration of Diffusion and Flow Phenomena in Complex Geometries,
Future Generation Computer Systems 14(3-4): 209-214, 1998.
51. R.G. Belleman, J.A. Kaandorp and P.M.A. Sloot,
Interactive environments for the exploration of large data sets.
In: ASCI '98, Proceedings of the fourth annual conference
of the Advanced School for Computing and Imaging, B.M. ter Haar,
D.H.J. Epema, J.F.M Tonino and A.A. Wolters (eds.), pp 264-268.
52. P.M.A. Sloot, J.A. Kaandorp, A.G. Hoekstra and B.J. Overeinder.
Distributed Cellular Automata: Large Scale Simulation of Natural
Phenomena, In: Solutions to Parallel and Distributed Computing Problems:
Lessons from Biological Sciences, A. Zomaya (ed.), Wiley (in press).
53. R.G. Belleman, J.A. Kaandorp, D. Dijkman and P.M.A. Sloot,
Geoprove: Geometric probes for virtual environments
In: ASCI '99, Proceedings of the fifth annual conference
of the Advanced School for Computing and Imaging,
M. Boasson, J.A. Kaandorp, J.F.M. Tonino and M.G. Vosselman (eds.),
pp 38-43, Advanced School for Computing and Imaging (ASCI), 1999.
54. R.G.Belleman, J.A. Kaandorp and D. Dijkman and P.M.A. Sloot
GEOPROVE: Geometric Probes for Virtual Environments,
In: High Performance Computing and Networking HPCN'99,
P.M.A. Sloot, M. Bubak, A.G. Hoekstra, and L.O. Hertzberger
(eds.) Springer-verlag, Amsterdam, pp 817-827, 1999
55. P.M.A. Sloot, J.A. Kaandorp, A.G. Hoekstra and B.J. Overeinder,
Distributed Simulation with Cellular Automata: Architecture and
Applications, Lecture Notes in Computer Science 1725, pp 203-249 (1999)
SOFSEM'99, 26th Conference on Current Trends in Theory and Practice of
Informatocs, Milovy, Czech Republic. November 27 - December 4.
J. Pavelka, G. Tel and M. Bartosek (eds.), Springer Berlin, Heidelberg.
56. M. Boasson; J.A. Kaandorp; J.F.M. Tonino and M.G. Vosselman:
Proceedings of the fifth annual conference of the Advanced School for
Computing and Imaging ASCI, ASCI, ASCI, Delft, June 1999.
57 R.M.H. Merks; A.G. Hoekstra; J.A. Kaandorp and P.M.A. Sloot: Spontaneous
branching in a polyp oriented model of stony coral growth, in
Proceedings of the 2002 International Conference on Computational Science
ICCS2002, (in press) in series Lecture Notes in Computer Science, 2002.
58. H. Afsarmanesh, R.G. Belleman, A.S.Z. Belloum, A. Benabdelkader,
J.F.J. van den Brand, G.B. Eijkel, A. Frenkel, C. Garita, D.L. Groep,
R.M.A. Heeren, Z.W. Hendrikse, L.O. Hertzberger, J.A. Kaandorp,
E.C. Kaletas, V. Korkhov, C.T.A.M. de Laat, P.M.A. Sloot, D.Vasunin,
A. Visser and H.H. Yakali VLAM-G: A Grid-based virtual laboratory,
Scientific Programming 10 (2):173-181, 2002
59. R.M.H. Merks; A.G. Hoekstra and P.M.A. Sloot: Validation of the Lowe-Frenkel
tracer dispersion method in the lattice Boltzmann method, in R.L. Lagendijk;
J.W.J. Heijnsdijk; A.D. Pimentel and M.H.F. Wilkinson, editors,
Proceedings of the 7th annual conference of the Advanced School for
Computing and Imaging, pp. 137-141. ASCI, May 2001. ISBN 90-803086-6-8.
60. R.M.H. Merks; A.G. Hoekstra; J.A. Kaandorp and P.M.A. Sloot: Spontaneous
branching in a polyp oriented model of stony coral growth, in P.M.A. Sloot;
C.J.K. Tan; J.J. Dongarra and A.G. Hoekstra, editors, Computational Science
- ICCS 2002, Proceedings Part I, in series Lecture Notes in Computer
Science, vol. 2329, pp. 88-96. Springer Verlag, April 2002.
[ 61 ] R.M.H. Merks; A.G. Hoekstra; J.A. Kaandorp and P.M.A. Sloot: Models of coral
growth: Spontaneous branching, compactification and the Laplacian growth
assumption, Journal of Theoretical Biology, 224: 153--166, 2003.
62. R.M.H. Merks, A.G. Hoekstra; J.A. Kaandorp and P.M.A. Sloot,
Diffusion-Limited Aggregation in laminar flows, International
Journal of Modern Physics C, 14: 1171-1182, 2003.
63. R.M.H. Merks, A.G. Hoekstra, J.A. Kaandorp, and P.M.A. Sloot (2003).
Branching and compactification in a model of coral growth: a critical
reinvestigation of the effect of hydrodynamics. in: V. Capasso (ed.)
"Mathematical modelling & Computing in Biology and Medicine; 5th ESMTB
Conference 2002.", pp. 539-544. MIRIAM (Milan Research Centre for Industrial
and Applied Mathematics), 2003.
64. R.M.H. Merks, A.G. Hoekstra, J.A. Kaandorp, and P.M.A. Sloot (2003)
A problem solving environment for modelling stony coral morphogenesis. In:
P.M.A. Sloot, D. Abramson, A.V. Bogdanov, J.J. Dongarra, A.Y. Zomaya, and
Y.E. Gorbachev, editors, Computational Science - ICCS 2003, volume 2657 of
Lecture Notes in Computer Science, pages 639-648, Melbourne, Australia and
St. Petersburg, Russia, 2003.
65. T. Krul, J.A. Kaandorp and J.G. Blom. Modelling Developmental Regulatory Networks.
In: Proceedings of Computational Science - ICCS 2003, International Conference
Saint Petersburg Russian Federation, Melbourne Australia, June 2-4, 2003.
Eds: P.M.A. Sloot, D. Abramson, A. Bogdanov, J.J Dongarra, A. Zomaya, and
Y. Gorbachev. upringer-Verlag, Berlin pp 688-697 (2003).
[ 66 ] R.M.H. Merks, A.G. Hoekstra; J.A. Kaandorp and P.M.A. Sloot,
Polyp Oriented Modelling of Coral Growth
Journal of Theoretical Biology 228:559-576, 2004
[ 67 ] O.V. Kaluzhnaya, S.I. Belikov, H.C. Schroeder, S. Zapf, A. Borejko, J.A. Kaandorp,
A. Krasko, I.M. Mueller and W.E.G. Mueller. Dynamics of skeletal formation in the Lake
Baikal sponge Lubomirskia baicalensis. Part I biological and biochemical
studies, Naturwissenschaften, 92: 128-133 (2005).
[ 68 ] O.V. Kaluzhnaya, S.I. Belikov, H.C. Schroeder, S. Zapf, A. Borejko, J.A. Kaandorp,
A. Krasko, I.M. Mueller and W.E.G. Mueller. Dynamics of skeletal formation in the Lake
Baikal sponge Lubomirskia baicalensis. Part II Molecular biological
studies, Naturwissenschaften, 92:134-138.
[ 69 ] 70. R.M.H. Merks, A.G. Hoekstra; J.A. Kaandorp, P.M.A. Sloot and P. Hogeweg,
Problem-Solving Environments for Biological Morphogenesis, Comput. Sci. Eng.
8(1): 61-72, 2006
71. K. Kruszynski, R. van Liere and J.A. Kaandorp,
Quantifying Differences in Skeletonization Algorithms: a Case Study
IASTED, Visualization, Imaging, & Image Processing (VIIP 2005) ,
September 2005.
72. K. Kruszynski, R. van Liere and J.A. Kaandorp,
An Interactive Visualization System for Quantifying Coral Structures
Eurographics / IEEE-VGTC Symposium on Visualization 2006, T. Ertl, K.Joy
and B. Santos (eds.), 2006, pp 1-8.
[ 73 ] J. Cui, J.A. Kaandorp Mathematical Modelling of Calcium Homeostasis in
Yeast Cells Cell Calcium 39:337-348, 2006
[ 74 ] W.E.G. Mueller, O.V. Kaluzhnaya, S.I. Belikov, M. Rothenberger,
H.C. Schroeder, A. Reiber, J.A. Kaandorp, B. Manz, D. Mietchen and
F. Volke J. Magnetic resonance imaging of the siliceous skeleton of
the demosponge Lubomirskia baicalensis, Journal of Structural Biology,
153:31-41, 2006
[ 75 ] J. Vidal Rodriquez, J.A. Kaandorp, M. Dobrzynski and J.G. Blom. Spatial
Stochastic Modelling of the phosphoenolpyruvate-dependent phosphotransferase
(PTS) pathway in Escherichia coli, Bioinformatics, 22:1895-1901, 2006
76. J. Vidal Rodriquez and J.A. Kaandorp, Inferring the distribution of
inter-reaction intervals for diffusion-limited reactions on lattices
Int. J. Mod. Phys. C 18: 749-758, 2007.
77. M. Dobrzynski, J. Vidal Rodriquez, J.A. Kaandorp and J.G. Blom
Computational methods for diffusion-limited biochemical reactions
Bioinformatics 23:15:1969--1977, 2007.
78. M. Wiens, S.I. Belikov, O.V. Kaluzhnayaa, T. Adella, H.C. Schrödera,
S. Perovic-Ottstadt, J.A. Kaandorp and W.E.G. Müller, Regional and modular
expression of morphogenetic factors in the demosponge Lubomirskia
baicalensis Micron, 39:447-460, 2008.
[ 79 ] K. Kruszynski, J.A. Kaandorp and R. van Liere
A computational method for quantifying morphological variation in
scleractinian corals, Coral Reefs 26:831-840, 2007.
80. W.E.G. Mueller, A. Boreiko, U. Schloemacher, X. Wang,
M. Nawaz Tahir, W. Tremel, D. Brandt, J.A. Kaandorp and
H. C. Schroeder, Fractal-related assembly of the axial filament in the demosponge Suberites
domuncula: relevance to biomineralization and the formation of biogenic
silica, Biomaterials 28:4501-4511, 2007
[ 81 ] Y. Fomekong Nanfack, J.A. Kaandorp and J.G. Blom
Efficient parameter estimation for spatio-temporal models of
pattern formation: Case study of Drosophila melanogaster
Bioinformatics 23:3356-3363, 2007
[ 82 ] J. Cui, J.A. Kaandorp , O. O. Ositelu, V. Beaudry, A. Knight,
Y. Fomekong Nanfack, K. W. Cunningham, Simulating Calcium Influx and
Free Calcium Concentrations in Yeast, Cel Calcium 45: 123-132, (2009)
83. J. Cui and J.A. Kaandorp, Simulating complex calcium-calcineurin signaling
network, in M.T. Bubak; G.D. van Albada; J.J. Dongarra and P.M.A. Sloot,
editors, Computational Science - ICCS 2008: 8th International Conference,
Krakow, Poland, Proceedings, Part II, in series Lecture Notes
in Computer Science, vol. 5103, pp. 110-119. Springer, Berlin, Heidelberg,
June 2008.
[ 84 ] X. Wang, D. Brandt, H. C. Schroeder,
J. Li, A. Boreiko, U. Schlossmacher, J.A. Kaandorp,
H. Gotz, H. Duschner, and W.E.G. Mueller Axial growth of hexactinellid spicules:
formation of cone-like structural units in the giant basal spicules of
the hexactinellid Monorhaphis, Journal of Structural Biology 164:270-280, 2008
[ 85 ] J. Cui, J.A. Kaandorp and C.M. Lloyd Simulating In Vitro
Transcriptional Response of Zinc Homeostasis System in Escherichia coli, BMC Systems Biology 2:89, 2008
86. M. Ashyraliyev, Y. Fomekong Nanfack, J.A. Kaandorp, J.G. Blom
Systems biology: Parameter estimation for biochemical models,
FEBS journal 276:886-902, 2009
[ 87 ] J.Cui, J.A. Kaandorp, P.M.A. Sloot, P. Thiagarajan, C. Lloyd,
M. Filatov Calcium homeostasis and signalling in yeast cells and
cardiac myocytes FEMS Yeast Research 9(8):1137-1147. 2009
[ 88 ] Y. Fomekong Nanfack, M. Postma J.A. Kaandorp, Inferring Drosophila
gap gene regulatory network: a parameter sensitivity and perturbation analysis
BMC Systems Biology, 3:94, 2009
[ 89 ] Y. Fomekong Nanfack, M. Postma J.A. Kaandorp, Inferring Drosophila}
gap gene regulatory network: pattern analysis of gene expression profiles
and stability analysis, BMC Research Notes, 2:256, 2009
90. J. Cui; J.A. Kaandorp; P.M.A. Sloot and P.S. Thiagarajan: Simulating
Calcineurin-Centered Calcium Signaling Network in Cardiac Myocytes, in J.E. García
and V.R. Wright, editors, Congestive Heart Failure: Symptoms, Causes and Treatment,
2010. Nova Publishers, 2010. ISBN 978-1-60876-677-2.
[ 91 ] M.V. Filatov, J.A. Kaandorp, M. Postma, R. van Liere, K.J. Kruszynski,
M.J.A. Vermeij, G.J. Streekstra and R.P.M.Bak, A comparison between coral
colonies from the Madracis genus and simulated forms, Proc. R. Soc. B 277:3555-3561, 2010
[ 92 ] P.R. Frade, M.C. Reyes-Nivia, J. Faria, J.A. Kaandorp, P.C. Luttikhuizen
R.P.M. Bak, Semi-permeable species boundaries in the coral genus Madracis:
the role of introgression in a brooding coral system, Molecular Phylogenetics
and Evolution 57:1072-1090, 2010
[ 93 ] C. Tamulonis, M. Postma, H. Marlow, C. Magie, J. de Jong,
and J.A. Kaandorp, Morphometrics & Modeling of Nematostella vectensis
Gastrulation, Developmental Biology (in press, 2010)
[ 94 ] J. Hammel, M.V. Filatov, J. Herzen, F. Beckmann, J.A. Kaandorp, M. Nickel,
The non-hierarchical, non-uniformly branching topology of a leuconoid
sponge aquiferous system revealed by 3D reconstruction and morphometrics
using corrosion casting and X-ray microtomography
Acta Zoologica, 2011
95. C. Tamulonis, M. Postma, J.A. Kaandorp, Gliding Filamentous
Cyanobacteria Reveals the Advantages of Longer, Faster and
Photophobic Trichomes, PlosOne (in press)

Publications submitted

Reports

94. J.A. Kaandorp. Interactive generation of fractal objects.
Technical report R 8706, Centre for Mathematics and Computer Science,
Department of Computer Science, Amsterdam, 1987.
95. H.A. Lauwerier and J.A. Kaandorp.
Fractals (mathematics, programming and applications).
Technical report R 8762, Centre for Mathematics and Computer Science,
Department of Computer Science, Amsterdam, 1987.
96. A. Schoneveld, J.A. Kaandorp, and P.M.A. Sloot. Parallel dynamic
complex systems. PowerXplorer User Report, Heinrich-Heine-Universitat
Dusseldorf, Parsytec Computer GmbH, 1995.
97. J.A. Kaandorp. Modelling and simulation of morphogenesis.
Technical report, University of Amsterdam, 1996.
Mastercourses Wiskunde, Dynamische Modellen, 19 april 1996.
98. J.A. Kaandorp and P.M.A. Sloot. Parallel solvers for simulating
morphogenesis. PowerXplorer User report, Heinrich-Heine-Universitat
Dusseldorf, Parsytec Computer GmbH, 1995.
99. P.M.A. Sloot, J.A. Kaandorp, and A.~Schoneveld. Dynamical Complex
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