Events and Documents
Morphex dissemination events
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July 7-11, 2008 July 2008 August 2008 21-24 August 2008 9-12 September 2008 14-19 September 2008 2008 2008 2008 2008 2008 2008 2009 March 2009 22-23 April 2009 24 April 2009 4-17 May 2009 June 2-4, 2009 2009 2009 2009 2009 19-23 July 2009 2008 2009 2009 September2009 2009 2008 2009 2009 |
1) 11th International Coral Reef Symposium 2) HFSP meeting, Berlin. 3) FESPB, meeting, Tampere. Finland. 4) COCOA 2008 2nd Annual Conference on Combinatorial and Applications St. John's, Newfoundland, Canada 5) CLAIO 2008 Congreso Latino Ibero Americano de Investigacion de opraciones cartagenas de Indias, Columbia 6) The European Conference on Complex Systems, 2008,Hebrew University of Jerusalem, Israel 7) International Conference on Advanced Information Networking and Applications (AINA’08) 8) International Conference on Complex, Intelligent and Software Intensive Systems 2008 (CISIS’08) 9) ACRI 2008 10) Journées Modélisation, optimisation et analyse statique, CIRM, Marseille, France 11) Journée Optimeo, Université Paris-Sud XI, Orsay, France 12) Automatic Reformulation Search Workshop (ARS08), LIX, Paris 13) Presentation in Boston Harvard 14) CSHL meeting: Plant Genomes:Genes, Networks & Applications. Cold Spring Harbor, US 15) 6th International Symposium on Networks in Bioinformatics (ISNB), Amsterdam 16) NetSciCom 09, Rio de Janeiro, Brasil 17) Morphogenesis in Living Systems Conference – Paris 18) CTW 09, Cologne Twente Workshop 2009, Paris, France, 19) Séminaire du laboratoire LIFL, Lille, France 20) Séminaire du laboratoire IBISC, Evry, France 21) Séminaire de l'équipe Bioinformatique, LRI, Orsay, Paris, France 22) Séminaire de l'équipe Symbiose,Irisa, Rennes, France 23) The power of marine genomics. 6th European Conference on Marine Natural Products, Porto, Portugal, 24) Honda Reseach, Offenbach, Germany 25) National University of Singapore 26) Centre for Scientific Computing & Complex Systems Modelling (SCI-SYM), Dublin 27) International Workshop on Engineering Principles of Innovation in swarm-made Architectures, Venice 28) University of Bologna 29) On the number and robustness of attractors in Bolean networks. Workhop on Discrete Models of Biological Networks 30) Coloquio DIM, Universidad de Concepción, chile 31) European Conference on Complex Systems. Poster. University of Warwick |
Morphex documents relative to events
Mission in Caltech June 2007
presentation Eric BoixECCS07 and Full Morphex Meeting, dresden October 2007
presentation Eric BoixAmsterdam Symposium April 2008
abstract Uribepresentation Uribe :Meta Model for Modelling Complex System
Presentation Uribe : CosMo Simulation Platform
conference paper
poster
conference paper
CTW 08, Seventh Cologne – Twente Workshop on Graphs and Combinatorial, May 13-15, 2008 – Gargnano, Italy
conference paperECCS 08, The European Conference on Complex Systems, 2008,September 14-19 at the Hebrew University of Jerusalem, Israel
conference paperCOCOA 2008, 2nd Annual Confernece on Combinatorial and Applications, St. John’s, Newfoundland, Canada
conference paperCLAIO 2008, Congreso Latino Ibero Americano de Investigacion de opraciones cartagenas de Indias, Colombia
conference paperHarvard, USA, January 30-February 6, 2009
presentation Eric BoixMorphogenesis in Living Systems 2009 14-16 May 2009 : http://rnsc.fr/MLS-2009
presentation Eric Boix-Jaap KaandorpCTW 09, Cologne Twente Workshop 2009, Paris, France, June 2-4 2009
conference paperconference paper
NetSciCom’09, NetSciCom 2009, First IEEE International Workshop on Network Science For Communication Networks, April 24, 2009 - Rio de Janeiro, Brazil
conference paperConferences
1) 11th International Coral Reef Symposium, Fort Lauderdale, Florida, USA, July 7-11, 2008.
• Conference Paper :
Jaap Kaandorp : A computational model for gene regulation of early development in the sea anemone nematostella vectensis and the coral Acropora millepora
2) HFSP meeting, Berlin, July 2008
• Conference Paper :
Jan Traas : "The control of plant shape."
3) FESPB, meeting, Tampere, Finland, August 2008
• Conference Paper : Plenary lecture
Jan Traas : "The shoot apical meristem and organ initiation."
4) COCOA 2008, 2nd Annual Confernece on Combinatorial and Applications, St. John’s, Newfoundland, Canada
• Conference Paper :
Leo Liberti, Automatic generation of symmetry-breaking constraints, COCOA08 Proceedings, LNCS, accepted for publication.
http://www.lix.polytechnique.fr/~liberti/autgensymm.pdf
5) CLAIO 2008, Congreso Latino Ibero Americano de Investigacion de opraciones cartagenas de Indias, Colombia
• Conference Paper:
Camilo La Rota, Fabien Tarissan, Leo Liberti, Inferring parameters in Genetic Regulatory Networks, CLAIO 2008 Proceedings, accepted for publication.
http://www.lix.polytechnique.fr/~liberti/grnclaio.pdf
or
http://www.morphex.org/tiki-download_wiki_attachment.php?attId=326&page=Dissemination
6) ECCS 08, The European Conference on Complex Systems, 2008,September 14-19 at the Hebrew University of Jerusalem, Israel.
• Conference Paper:
Author: Fabien Tarissan, Camilo La Rota and Leo Liberti. Title “Network reconstruction: a mathematical programming approach”, European Conference on Complex Systems (ECCS’08) accepted for publication. This article presents a method employing mathematical programming and global optimization techniques for solving inverse problems arising in biological regulatory network reconstruction. This problem consists in estimating unknown parameters of a model that describe the structure and dynamics of a biological system from a set of experimental observations and can be naturally cast as an optimization problem: choose the parameter values minimizing a given distance between the observed and estimated values of some observable variables. This minimization is subject to constraints derived from the models.
http://www.lix.polytechnique.fr/~liberti/grneccs.pdf
or
http://www.morphex.org/tiki-download_wiki_attachment.php?attId=327&page=Dissemination
7) AINA’08, International Conference on Advanced Information Networking and Applications
• Conference Paper:
Jacques Demongeot, Michel Morvan, and Sylvain Sené. Impact of Fixed Boundary Conditions on the Basins of Attraction in the Flower’s Morphogenesis of Arabidopsis Thaliana. In IEEE Proceedings of the Workshops of the International Conference on Advanced Information Networking and Applications (AINA’08). In press.
8) CISIS’08, International Conference on Complex, Intelligent and Software Intensive Systems 2008.
• Conference Paper:
Jacques Demongeot, Michel Morvan, and Sylvain Sené. Robustness of Dynamical Systems Attraction Basins Against State Perturbations: Theoretical Protocol and Application in Systems Biology. In IEEE Proceedings of the International Conference on Complex, Intelligent and Software Intensive Systems 2008 (CISIS’08). In press.
9) ACRI 2008
• Conference Paper:
Jean-Baptiste Rouquier and Michel Morvan. Combined effect of topology and synchronism perturbation on cellular automata : Preliminary results. In ACRI, 2008. accepted. This paper studies the way different structural perturbations can either sum up or nnihilate depending on the underlying dynamical system – in this case, depending on the underlying cellular automata.
10) Journées Modélisation, optimisation et analyse statique, CIRM, Marseille, France
11) Journée Optimeo, Université Paris-Sud XI, Orsay, France
12) Automatic Reformulation Search Workshop (ARS08), LIX, Paris
13) Mission in Boston, Harvard, 02 February, 2009.
• Presentation
http://www.morphex.org/tiki-download_wiki_attachment.php?attId=325&page=Dissemination
14) CSHL meeting: PLANT GENOMES:GENES, NETWORKS & APPLICATIONS. Cold Spring Harbor, US. March 2009
• Conference Paper: Jaan Traas
The shoot apical meristem and organ initiation."
15) ISNB 2009, the 6th International Symposium On Networks In Bioinformatics, Science Park Amsterdam, 22-23 April, 2009, http://isnb.amc.uva.nl/isnb2009/.
• Abstract
The 6th International Symposium on Networks in Bioinformatics (ISNB 2009) is scheduled on 22 and 23 April 2009 and is likely to continue its success from previous years in bringing different disciplines together to discuss ongoing research in bioinformatics and biology of networks. The focus of 6th International Symposium on Networks in Bioinformatics will be on biological networks such as metabolic networks, signal transduction pathways and genetic regulatory networks. This year we also aim to include topics like modeling of cells, tissues, gene regulation and biomineralisation. We also want to invite researchers working on gene networks in plants (e.g. Arabidopsis), model organisms such as Drosophila and organisms with a relatively simple and basal body plan such as sponges and scleractinian corals.
Understanding of these networks is crucial for understanding molecular and cellular processes in the organism or system under study. This field is subject of lively research and both experimental and computational approaches are used to elucidate the biological networks. The bioinformatics of biological networks involves a broad range of research and approaches. Research includes the identification of regulatory elements in DNA, developmental biology, genome context analysis, modelling and simulation of pathways, reconstruction of pathways from experimental data, visualization of pathways, and the representation of pathways in database, graphs and mark-up languages.
INVITED SPEAKERS
Mark Q. Martindale (University of Hawaii, USA), Mark Biggin (Lawrence Berkely National Laboratory, USA), Noam Kaplan (Weizmann Institute Israel), Filipa Alves (Center for Developmental Biology, Portugal), Shannon K. Mcweeney (Oregon Health and Science University, USA), Yves Fomekong Nanfack (University of Amsterdam), Armand Bankhead (Knight Cancer Institute, USA)
• Conference Paper:
Jaan Traas
16) NetSciCom’09, NetSciCom 2009, First IEEE International Workshop on Network Science For Communication Networks, April 24, 2009 - Rio de Janeiro, Brazil
http://netscicom2009.asu.edu/
SCOPE:
Network Science is a newly emerging discipline with applications in a variety of domains, such as, Communication Networks, Power Grid Networks, Transportation Networks, Social Networks, Biological Networks and Economics. Designing complex communication networks of the future needs a deep understanding of the interplay between the physical-, the communication- and the social networks involved. An understanding of such interdependency can only be achieved by closer interaction between Network Scientists, Communication Network Designers, and Social and Behavioral Scientists. The goal of this workshop is to a provide a forum where this diverse group of researchers can meet and exchange ideas that will lead to deeper insights into the design of robust, efficient and complex communication networks of the future.
TOPICS OF INTEREST:
The topics of this workshop lie at the intersection of Network Science and Communication Network Design - including Topology Design and Analysis, Traffic Modeling, Traffic Routing, Social Media Analysis:
blogs and friendship networks, Bio-inspired networks, Internet scale measurement and analysis of online communities, Social network analysis with mobile phone data, Interdependency between power grid, communication and transportation networks.
• Conference Paper:
Efficient Measurement of Complex Networks Using Link Queries” Fabien Tarissan, Matthieu Latapy and Christophe Prieur. In Proceedings of the IEEE International Workshop on Network Science For Communication Networks (NetSciCom’09), to appear
http://www.lix.polytechnique.fr/~tarissan/articles/eff.pdf
17) Morphogenesis in Living Systems Conference - Paris May 14th-May 17th 2009
http://rnsc.fr/MLS-2009
• Abstract
• Presentation
Eric Boix and Jaap Kaandorp
http://www.morphex.org/tiki-download_wiki_attachment.php?attId=321&page=Dissemination
Jan Traas : "Morphogenesis in plants: from genes to shape".
18) CTW 09, Cologne Twente Workshop 2009, Paris, France, June 2-4 2009
http://www.lix.polytechnique.fr/ctw09/
• Conference Paper:
Inferring Update Sequences in Boolean Gene Regulatory Networks” Fabien Tarissan and Camilo La Rota. In Proceedings of the Cologne-Twente Workshop on Graphs and Combinatorial Optimization 2009 (CTW’09), to appear.
http://www.morphex.org/tiki-download_wiki_attachment.php?attId=328&page=Dissemination
or
http://www.lix.polytechnique.fr/~tarissan/articles/asynch.pdf
19) Séminaire du laboratoire LIFL, Lille, France
20) Séminaire du laboratoire IBISC, Evry, France
21) Séminaire de l'équipe Bioinformatique, LRI, Orsay, Paris, France
22) Séminaire de l'équipe Symbiose,Irisa, Rennes, France
23) 6th European Conference on Marine Natural Products, 19-23 July 2009, Porto, Portugal
• Conference Paper:
W.E.G. Müller and H.C. Schröder: The power of marine genomics. Abstract No. PL 08
24) Honda Reseach, Offenbach, Germany, 2008
• Invited Presentation: Jaap Kaandorp
25) National University of Singapore, 2009
• Invited Presentation: Jaap Kaandorp
26) Centre for Scientific Computing & Complex Systems Modelling (SCI-SYM), Dublin, 2009
• Invited Presentation: Jaap Kaandorp
27) International Workshop on Engineering Principles of Innovation in swarm-made Architectures, Venice, Italy, September 2009.
• Invited Presentation: Jaap Kaandorp
28) University of Bologna, Italy, 2009.
• Invited Presentation: Jaap Kaandorp
29) Workhop on Discrete Models of Biological Networks: from Structure to Dynamic. CIRM (Marseille Luminy), Francia. November 3-7, 2008.
• Conference Paper:
J. Aracena. On the number and robustness of attractors in Bolean networks.
30) Coloquio DIM, Universidad de Concepción, Chile, October 21, 2009.
• Conference Paper:
Julio Aracena. Combinatoria de grafos de actualización de redes discretas.
31) European Conference on Complex Systems. University of Warwick. September 21-25, 2009.
• Poster:
Aracena J., Gómez L., L. Salinas. Limit cycles and update schedules in Boolean networks,
Publications
1) 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
2) Jacques Demongeot, Christelle Jézéquel, and Sylvain Sené. Boundary Conditions and Phase Transitions in Neural Networks. Theoretical Results. Neural Networks. Accepted if revised.
3) Jacques Demongeot and Sylvain Sené. Boundary Conditions and Phase Transitions in Neural Networks. Simulation Results. Neural Networks. Accepted if revised.
4) Leo Liberti, Carlile Lavor, Nelson Maculan, Marco-Antonio Chaer Nascimento, Reformulation in mathematical programming: an application to quantum chemistry, Discrete Applied Mathematics, accepted for publication.
5) Hanif Sherali, Leo Liberti, Reformulation-Linearization Methods for Global optimization, in P. Pardalos and C. Floudas (eds.), Encyclopedia of Optimization, 2nd Edition, accepted for publication. Encyclopedia entry.
6) Martin Nilsson Jacobi and Olof Görnerup: Aggregation of variables in linear dynamical systems and lumping of states in Markov chains: "We present a method for identifying coarse grained dynamics through aggregation of variables or states in linear dynamical systems. The condition for aggregation is expressed as a permutation symmetry of a set of dual eigenvectors of the matrix that defines the dynamics. The applicability of the condition is illustrated in examples from three different generic classes of reducible Markov chains: Systems consisting of independent subsystems, dynamics with symmetries, and nearly decoupled Markov chains." Under submission.
7) Martin Nilsson Jacobi and Olof Görnerup: A dual eigenvector condition for strong lumpability of Markov chains: “Necessary and sufficient conditions for identifying strong lumpability in Markov chains are presented. We show that the states in a lump necessarily correspond to identical elements in eigenvectors of the dual transition matrix. If there exist as many dual eigenvectors that respect the necessary condition as there are lumps in the aggregation, then the condition is also sufficient. The result is demonstrated with two simple examples.” Under submission.
8) Martin Nilsson Jacobi and Olof Görnerup: Ontological Simulation: Mimesis and animation. The present paper focuses on what is here termed “ontological Simulation” and argues that this class of models can be usefully defined and has enabled an epistemologically relevant scientific strategy that is becoming more and more important: A quantitative treatment of descriptive hypotheses. Ontological simulation can be differentiated from other types of modeling by that it relies on causal similarity in addition to representation: The modeling of phenomena not directly but via mimesis of the ontology (i.e. the “underlying physics”) of systems and a subsequent animation of the resulting model ontology as a dynamical system to thereby render a phenomenology. Two main types of strategies are pursued using ontological simulation: i) Direct simulation where a mimicked ontology is used basically for making complex phenomenon-level mappings or computations. ii) Inverse simulation – which is the strategy that holds epistemological significance – where the model ontology is viewed as a hypothesis regarding the ontology of the target system. Inverse ontological simulation is argued to be one of the principal tools for hypothesis-testing in the complex systems approach to science. It makes possible a quantitative approach to hypotheses about the structure and function of systems that would previously only have been amenable to qualitative study. Under submission.
9) M. Morvan, and J.-B. Rouquier. Coalescing cellular automata — synchronizing CA by common random source and varying asynchronicity. Journal of Cellular Automata, to appear, 2008. This paper deals with the study of dynamical properties of cellular automata submitted to perturbations.
10) 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
11) 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
12) 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
13) W.E.G. Müller and I.M. Müller: Porifera: an enigmatic taxon disclosed by molecular biology/cell biology. In: Porifera Research: Biodiversity, Innovation and Sustainability (M.R. Custódio, G. Lôbo-Hajdu, E. Hajdu, G. Lôbo-Hajdu and G. Muricy, eds). Proceedings of the 7th International Sponge Symposium. Série Livros 28, Museu Nacional, Rio de Janeiro, pp. 89-106 (2007).
14) S.I. Belikov, O.V. Kaluzhnaya, H.C. Schröder, I.M. Müller and W.E.G. Müller: Lake Baikal endemic sponge Lubomirskia baicalensis: Structure and organization of the gene family of silicatein and its role in morphogenesis. In: Porifera Research: Biodiversity, Innovation and Sustainability (M.R. Custódio, G. Lôbo-Hajdu, E. Hajdu, G. Lôbo-Hajdu and G. Muricy, eds). Proceedings of the 7th International Sponge Symposium. Série Livros 28, Museu Nacional, Rio de Janeiro, pp. 179-188 (2007).
15) H.C. Schröder, F. Natalio, M. Wiens, M.N. Tahir, M.I. Shukoor, W. Tremel, S.I. Belikov, A. Krasko and W.E.G. Müller: The 2'-5'-oligoadenylate synthetase in the lowest metazoa: isolation, cloning, expression and functional activity in the sponge Lubomirskia baicalensis. Molec. Immunol. 45, 945-953 (2008).
16) Eric Goles and Lilian Salinas: Filters for Boolean networks, in progress
17) Eric Golès, Moreira: Simulation of different kinds of iteration modes and filters for Boolean networks, in progress
18) Eric Goles and Lilian Salinas: Comparison between parallel and serial dynamics of Boolean networks, Theoretical Computer Science 396 (2008), 247-253.
19) Julio Aracena, Eric Goles and Lilian Salinas, Moreira: On the robustness of update schedules in Boolean networks. Accepted. Biosystems; DOI 10.1016/j.biosystems.2009.03.006
20) O. Görnerup and M. Nilsson Jacobi, An algorithm for aggregating variables in linear dynamical systems.
21) O. Görnerup and M. Nilsson Jacobi, Inference of higher order substitution dynamics by Markov chain lumping, arXiv:0810.4860v1
22) M. Nilsson Jacobi, A robust spectral method for finding lumpings and meta stable states of non-reversible Markov chains, arXiv:0810.1127v1.”
23) 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)
24) Fomekong-Nanfack M. Postma and J. A. Kaandorp, Inferring Drosophila gap gene regulatory network: a systematic model analysis.
25) Leo Liberti, Sonia Cafieri and Fabien Tarissan: Reformulations in Mathematical Programming: A Computational Approach”. In A. Abraham, A.-E. Hassanien, P. Siarry (eds.), Foundations of Computational Intelligence, Vol. 3, Studies in Computational Intelligence series, 203:153-234, Springer, New York, 2009.
http://www.lix.polytechnique.fr/~liberti/arschapter.pdf
26) Leo Liberti, Reformulations in Mathematical Programming: Definitions and Systematics, RAIRO-RO, 43(1):55-86,2009.
http://www.lix.polytechnique.fr/~liberti/defpaper.pdf
27) D. Krob, Y. Caseau and S. Peyronnet, Complexité des systèmes d’information : une famille de mesures de la complexité scalaire d’un schéma d’architecture, Génie Logiciel, 82, 23-30, 2007
28) D. Krob and S. Bliudze, Modeling of Complex system – System as data-flow machines, Fundamenta Informaticae, Special Issues : Machines, Computations and Universality, 91,1-24, 2009
29) M. Nilsson Jacobi and o. Görnerup, A spectral method for aggregating variables in linear dynamical systems with application to cellular automata renormalization, Advances in Complex System, 12 (2), 1-25, 2009
30) W.E.G. Müller, M.R. Custódio, M. Wiens, C. Zilberberg, A. Châtel, I.M. Müller and H.C. Schröder: Effect of bacterial infection on stem cell pattern in Porifera. In: Stem Cells in Marine Organisms (B. Rinkevich and V. Matranga, eds.). Springer-Press, Berlin, pp. 309-336 (2009).
31) M. Wiens, P. Wrede, V.A. Grebenjuk, O.V. Kaluzhnaya, S.I. Belikov, H.C. Schröder and W.E.G. Müller: Towards a molecular systematics of the Lake Baikal/Lake Tuva sponges. In: Biosilica in Evolution, Morphogenesis and Nanobiotechnology: Case Study Lake Baikal (W.E.G. Müller and M.A.Grachev, eds.). Prog. Mol. Subcell. Biol. 47, 111-144 (2009).
32) M. Wiens, V.A. Grebenjuk, H.C. Schröder, I.M. Müller and W.E.G. Müller: Identification and isolation of a retrotransposon from the freshwater sponge Lubomirskia baicalensis: implication in rapid evolution of endemic sponges. In: Biosilica in Evolution, Morphogenesis and Nanobiotechnology: Case Study Lake Baikal (W.E.G. Müller and M.A.Grachev, eds.). Prog. Mol. Subcell. Biol. 47, 207-234 (2009).
33) W.E.G. Müller, M. Kasueske, X.H. Wang, H.C. Schröder, Y. Wang, D. Pisignano and M. Wiens: Luciferase a light source for the silica-based optical waveguides (spicules) in the demosponge Suberites domuncula. Cell. Molec. Life Sci. 66, 537-552 (2009).
34) 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
35) M. Ashyraliyev, Y. Fomekong Nanfack, J.A. Kaandorp, J.G. Blom Systems biology: Parameter estimation for biochemical models, FEBS journal 276:886-902, 2009
36) 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 (in press)
37) 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, in press)
38) J. de Jong, M. Postma, H. Marlow, C. Magie, M.Q. Martindale and J.A. Kaandorp. Extraction and analysis of quantitative spatio-temporal gene expression in early embryogenesis in the cnidarian Nematostella vectensis (in prep.)
39) J. de Jong, M. Postma, H. Marlow, C. Magie, M.Q. Martindale and J.A. Kaandorp. A proposal for a model of spatio-temporal gene regulation expression in early embryogenesis in the cnidarian Nematostella vectensis (in prep.)
40) C. Tamulonis, M. Postma, H. Marlow, C. Magie, J. de Jong and J.A. Kaandorp Morphometrics and Modeling of Gastrulation in the starlet sea anemone – Nematostella vectensis (submitted)
41) Aracena, J., Goles, E., Moreira, A., Salinas, L. On the robustness of update schedules in Boolean networks. Biosystems 97 (2009), 1–8.
42) Aracena, J. On the number of fixed points in regulatory Boolean net- works. Bulletin of Mathematical Biology 70 (5) (2008), 1398-1409.
43) Aracena, J., Gómez, L and Salinas, L. Limit cycles and update digraphs in Boolean networks,2009 (in progress)
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