Publications

• Cai Y. 2022. Evolutionary coexistence in a metacommunity: competition-colonization trade-off, ownership effects, and environmental fluctuations. J. theor. Biol. 533: 110944.
• Fan R. & S. A. H. Geritz. 2022. Modelling and optimising healthcare interventions in a model with explicit within- and between-host dynamics. J. theor Biol. 554: 111276.

• Berardo, C., Bulai, I.M., Venturino, E. 2021. Interactions obtained from basic mechanistic principles: Prey herds and predators. Mathematics 9: 2555.
• Berardo, C., Geritz, S. A. H. 2021. Coevolution of the reckless prey and the patient predator. J. theor. Biol. 530: 110873.
• Cai Y., Geritz, S. A. H. 2021. The evolution of the irreversible transition from a free-swimming state to an immobile sessile state in aquatic invertebrates modelled in a chemostat. J. theor. Biol. 522: 110681.
• Fan, R. & Geritz, S. A. H. 2021. Virulence management: closing the feedback loop between healthcare interventions and virulence evolution. J. theor. Biol. 531: 110900.
  
• Lehtinen S. O. 2021. Ecological and evolutionary consequences of predator-prey role reversal: Allee effect and catastrophic predator extinction. J. theor. Biol. 510: 110542.

• Berardo, C., Geritz, S. A. H., Gyllenberg, M. & Raoul, G. 2020. Interactions between different predator-prey states: a method for the derivation of the functional and numerical response, J. Math. Biol. 80: 2431-2468.
• Cai, Y., Geritz, S. A. H. 2020. Resident-invader dynamics of similar strategies in fluctuating environments. J. Math. Biol. 81: 907-959.
• Diekmann, O., Gyllenberg, M., Metz, J.A.J. 2020. On models of physiologically structured populations and their reduction to ordinary differential equations. J. Math. Biol. 80: 189-204.
• Diekmann, O., Gyllenberg, M., Metz, J.A.J. 2020. Finite dimensional state representation of physiologically structured populations. J. Math. Biol. 80: 205-273.
• Gyllenberg, M., Jiang,  J. & Niu, L. 2020. Chaotic attractors in the four-dimensional Leslie–Gower competition model. Physica D 402: 132186.
• Gyllenberg, M., Jiang, J., Niu, L. & Yan, P. 2020. Permanence and universal classification of discrete-time competitive systems via the carrying simplex. Discrete and Continuous Dynamical Systems 40: 1621-1663.
• Kisdi, É. 2020. TPB and the invasion of Adaptive Dynamics. Theor. Pop. Biol. 133: 52-55.

• Kisdi É. & Geritz S.A.H. 2020. Correction to: Adaptive dynamics of saturated polymorphisms. J. Math. Biol. 80: 955–957.

• Kisdi, É., Weigang, H. C. & Gyllenberg, M. 2020. The evolution of immigration strategies facilitates niche expansion by divergent adaptation in a structured metapopulation model. Am. Nat. 195: 1-15.

• Chen, L., Dong, Z., Jiang, J., Niu, L., & Zhai, J. 2019. Decomposition formula and stationary measures for stochastic Lotka-Volterra system with applications to turbulent convection. Journal de Mathematiques Pures et Appliquées 125: 43-93.

• Daoxiang, Z. & Yan, P. 2019. On the uniqueness of limit cycles in a generalized Lienard system. Qualitative Theory Systems 18: 1191–1199.

• Getto, P., Gyllenberg, M., Nakata, Y. & Scarabel, F. 2019. Stability analysis of a state-dependent delay differential equation for cell maturation: analytical and numerical methods. J. Math. Biol. 79:281–328.
  
• Gyllenberg, M., Jiang, J. & Niu, L. 2019. A note on global stability of three-dimensional Ricker models. Journal of Difference Equations and Applications 25: 142-150.
• Gyllenberg, M., Jiang, J., Niu, L. & Yan, P. 2019. On the dynamics of multi-species Ricker models admitting a carrying simplex. Journal of Difference Equations and Applications 25: 1489-1530.  
• Karisto, P. & Kisdi, E. 2019. Joint evolution of dispersal and connectivity. Evolution 73: 2529–2537.
• Lehtinen, S. O. & Geritz, S. A. H. 2019.  Cyclic prey evolution with cannibalistic predators. J. theor. Biol. 479: 1-13.
• Lehtinen, S. O. & Geritz, S. A. H. 2019. Coevolution of cannibalistic predators and timid prey: Evolutionary cycling and branching. J. theor. Biol. 483: 110001.

• Mierczyński, J., Niu, L. & Ruiz-Herrera, A. 2019. Linearization and invariant manifolds on the carrying simplex for competitive maps. Journal of Differential Equations 267: 7385-7410.

• Vitale, C. & Kisdi, É. 2019. Evolutionary suicide of prey: Matsuda & Abrams' model revisited. Bull. Math. Biol. 81: 4778-4802.

• Berardo, C., Bulai, I. M., Baptista, P., Gomez, T. & Venturino, E. 2018. Modeling the endophytic fungus Epicoccum nigrum action to fight the “olive knot” disease caused by Pseudomonas savastanoi pv. savastanoi (psv) bacteria in Olea europaea L. trees. In: Mondaini, R. P. (ed.), Trends in Biomathematics: Modeling, Optimization and Computational Problems: Selected works from the BIOMAT Consortium Lectures, Moscow 2017.  Springer International Publishing AG, Vol. VII, p. 189-207.
• Diekmann, O., Gyllenberg, M. & Metz, J.A.J. 2018. Finite dimensional state representation of linear and nonlinear delay systems. Journal of Dynamics and Differential Equations 30: 1439–1467.

• Geritz, S. A. H., Gyllenberg, M. & Toivonen, J. 2018. Adaptive correlations between seed size and germination time. J. Math. Biol. 77: 1943-1968.
• Gyllenberg, M., Jiang, J., Niu, L. & Yan, P. 2018. On the classification of generalized competitive Atkinson-Allen models via the dynamics on the boundary of the carrying simplex. Discrete Contin. Dyn. Syst. 38: 615-650.

• Gyllenberg, M., Scarabel, F. & Vermiglio R. 2018. Equations with infinite delay: numerical bifurcation analysis via pseudospectral discretization. Applied Mathematics and Computation 133: 490–505.

• Lehtinen S. 2018. Understanding the Venus flytrap through mathematical modelling. J. theor. Biol. 444: 1-10.
• Niu, L. & Ruiz-Herrera, A. 2018. Trivial dynamics in discrete-time systems: carrying simplex and translation arcs. Nonlinearity 31: 2633–2650.
• Rybicki J., É. Kisdi & J. V. Anttila. A model of bacterial toxin-dependent pathogenesis explains infective dose. PNAS 115: 10690-10695; press release on phys.org

• Daoxiang Z.,, Sun G., Zhao L.  & Yan P. 2017. Pattern formation and selection in a diffusive predator-prey system with ratio-dependent functional response. Acta Ecologica Sinica 37: 290-297.

• Daoxiang Z. & Yan P.  2017. Multiple limit cycles for the continuous model of the rock-scissors-paper game between bacteriocin producing bacteria. Applied Mathematics and Computation, 295:136-140.

• Daoxiang Z. & Yan P.  2017. Uniqueness and hyperbolicity of limit cycles for autonomous planar systems with zero diagonal coefficient. Applied Mathematics Letters 67: 75-80.
• Daoxiang Z. & Yan P.  2017. On the Hardy-Carleman Inequality for a Negative Exponent. Journal of Mathematical Inequalities 11: 885-890.
• Daoxiang Z. & Yan P.  2017. Necessary and sufficient conditions for the nonexistence of limit cycles of Leslie-Gower Predator-Prey models. Applied Mathematics Letters 71: 1-5.
• Gyllenberg, M., Hanski, I. & Lindström, T. 2017. Conditional reproductive strategies under variable environmental conditions. Annales Zoologici Fennici 54: 193-204.

• Jiang, J. & Niu, L. 2017. On the validity of Zeeman's classification for three dimensional competitive differential equations with linearly determined nullclines. Journal of Differential Equations 263: 7753-7781.

• Karisto P. & Kisdi, É. 2017. Evolution of dispersal under variable connectivity. J. theor. Biol. 419: 52–65.
• Wei F., Geritz S. A. H., Cai, J. 2017. A stochastic single-species population model with partial pollution tolerance in a polluted environment. Applied Mathematics Letters, 63: 130-136.
• Weigang H. C. 2017. Coevolution of patch-type dependent emigration and patch-type dependent immigration. J. theor. Biol. 426: 140-151.

• Boldin B. & Kisdi, É. 2016. Evolutionary suicide through a non-catastrophic bifurcation: Adaptive dynamics of pathogens with frequency-dependent transmission. J. Math. Biol. 72: 1101-1124.

• Breda D., Diekmann O., Gyllenberg M., Scarabel F. & Vermiglio R. 2016. Pseudospectral discretization of nonlinear delay equations: new prospects for numerical bifurcation analysis. SIAM Journal on Applied Dynamical Systems 15: 1-23.

• Breda D., Diekmann O., Liessi D. & Scarabel F. 2016. Numerical bifurcation analysis of a class of nonlinear renewal equations. Electronic Journal of Qualitative Theory of Differential Equations 65: 1-24.
• Cao, F., Gyllenberg, M. & Wang, Y. 2016. Group actions on monotone skew-product semiflows with applications. Journal of the European Mathematical Society 18: 195-223.
• Cote, J., Bocedi, G., Debeffe, L., Chdzinska M. E., Weigang H. C., Dytham C., Gonzalez G., Matthysen E., Travis J., Baguette M. & Hewison A. J. M. 2016.  Behavioural synchronization of large-scale animal movements – disperse alone, but migrate together? Biol. Rev. published online, DOI: 10.1111/brv.12279
• Dercole, F. & Geritz, S. A. H. 2016. Unfolding the resident-invader dynamics of similar strategies. J. theor. Biol. 394: 231-254.
• Geritz, S. A. H., Metz, J. A. J. & Rueffler, C. 2016. Mutual invadability near evolutionarily singular strategies for multivariate traits, with special reference to the strongly convergence stable case. J. Math. Biol. 72: 1081-1099.

• Gyllenberg, M., Kisdi, É. & Weigang, H. C. 2016. On the evolution of patch-type dependent immigration. J. theor. Biol. 395: 115-125.

• Kisdi, É. 2016. Dispersal polymorphism in stable habitats. J. theor. Biol. 392: 69–82.
• Kisdi, É. & Geritz, S. A. H. 2016. Adaptive dynamics of saturated polymorphisms. J. Math. Biol. 72: 1039-1079.
• Liu J. & Wei, F. 2016. Dynamics of stochastic SEIS epidemic model with varying population size. Physica A 464: 241-250.
• Liu J., Wei F. & Geritz, S. A. H. 2016. Effects of a toxicant on a single-species population with partial pollution tolerance in a polluted environment. Annals of Applied Mathematics 32: 266-274.
• Metz, J. A. J. & Geritz, S. A. H. 2016. Frequency dependence 3.0: an attempt at codifying the evolutionary ecology perspective. J. Math. Biol. 72: 1011-1037.
• Wei F. & Chen, F. 2016. Stochastic permanence of an SIQS epidemic model with saturated incidence and independent random perturbations. Physica A 453: 99-107.

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• Fang, C., Gyllenberg, M. & Wang, Y. 2015. Non-hyperbolic minimal sets for tridiagonal competitive-cooperative systems. Proceedings of the American Mathematical Society 143: 3063-3074, doi:10.1090/S0002-9939-2015-12536-1.
• Fortelius M., Geritz S. A. H., Gyllenberg M. & Toivonen J. 2015. Adaptive dynamics on an environmental gradient that changes over a geological time-scale. J. theor. Biol. 376: 91-104.

• Fortelius M., Geritz S., Gyllenberg M., Raia P. and J. Toivonen. Modeling the population-level processes of biodiversity gain and loss at geological time scales. Am. Nat. 186: 742-754.

• Geritz, S. A. H. & Reynolds, A. 2015. Tsallis distributions, Lévy walks and correlated-type anomalous diffusion result from state-dependent diffusion. Physica A 424: 317-321.
• Kisdi, É. 2015. Construction of multiple trade-offs to obtain arbitrary singularities of adaptive dynamics. J. Math. Biol. 70: 1093–1117.
• Numminen, E., Chewapreecha, C., Turner, C., Goldblatt, D., Nosten, F., Bentley, S. D., Turner, P. & Corander, J. 2015. Climate induces seasonality in pneumococcal transmission. Scientific Reports 5: 11344.
• Priklopil, T., Kisdi, É. & Gyllenberg, M. 2015. Evolutionarily stable mating decisions for sequentially searching females and the stability of reproductive isolation by assortative mating. Evolution 69: 1015-1026.

• Turova, T. S. & Vallier, T. 2015. Bootstrap percolation on a graph with random and local connections. Journal of Statistical Physics 160: 1249-1276.

• Weigang H. C. & Kisdi É. 2015. Evolution of dispersal under a fecundity-dispersal trade-off. J. theor. Biol. 371: 145–153.
• Zhang, L., Huang, G., Liu, A. & Fan, R. 2015. Stability analysis for a fractional HIV Infection model with nonlinear incidence. Discrete Dynamics in Nature and Society 563127.

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• Geritz, S. A. H. & Gyllenberg, M. 2014. The DeAngelis–Beddington functional response and the evolution of timidity of the prey. Journal of theoretical Biology 359: 37-44; doi:10.1016/j.jtbi.2014.05.015.
• Numminen, E, , Chewapreecha, C., Siren, J., Turner, C., Turner, P., Bentley, S. D. & Corander, J. 2014. Two-phase importance sampling for inference about transmission trees. Proc. R. Soc. B 281: 20141324, doi:10.1098/rspb.2014.1324.

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• Aminoff, E.-I. & Gyllenberg, M. 2013. A life in science and society - A bibliography of Helge Gyllenberg 1945-2013. Unigrafia Oy, Helsinki.
• Fang, C., Gyllenberg, M. & Wang, Y. 2013. Floquet bundles for tridiagonal competitive-cooperative systems and the dynamics of time-recurrent systems. SIAM Journal on Mathematical Analysis, 45: 2477-2498.
• Geritz, S. A. H. & Gyllenberg, M. 2013. Group defence and the predator's functional response. Journal of Mathematical Biology 66: 705–717; doi:10.1007/s00285-012-0617-7.
• Geritz S. A. H., Kisdi, É & Klausmeier, C. A. 2013. Introduction to Special issue: Peter Abrams Honor. J. theor. Biol. 339: 1-2.
• Gyllenberg, M. 2013. In honour of Odo Diekmann on the occasion of his 65th birthday. Journal of Mathematical Biology 66: 631-634; doi:10.1007/s00285-013-0641-2.
• Kisdi, É. & Boldin B. 2013. A construction method to study the role of incidence in the adaptive dynamics of pathogens with direct and environmental transmission. Journal of Mathematical Biology 66: 1021–1044; doi:10.1007/s00285-012-0563-4.
• Kisdi, É., Geritz, S. A. H. & Boldin, B. 2013. Evolution of pathogen virulence under selective predation: A construction method to find eco-evolutionary cycles. J. theor. Biol. 339: 140-150.
• Numminen, E., Cheng, L., Gyllenberg, M. & Corander, J. 2013. Estimating the transmission dynamics of Streptococcus pneumoniae from strain prevalence data. Biometrics 69: 748–757. DOI: 10.1111/biom.12040.
• Sunnåker M., Busetto, A. G., Numminen E., Corander J., Foll M. & Dessimoz C. 2013. Approximate Bayesian Computation. PLoS Comput Biol 9(1): e1002803. doi:10.1371/journal.pcbi.1002803.

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• Barabas, G., Pigolotti, S., Gyllenberg, M., Dieckmann, U. & amp; Meszena, G. 2012. Continuous coexistence or discrete species? A new review of an old question. Evolutionary Ecology Research 14: 523-554.
• Boldin B. & Kisdi, É. 2012. On the evolutionary dynamics of pathogens with direct and environmental transmission. Evolution 66: 2514-2527; doi:10.1111/j.1558-5646.2012.01613.x.
• Diekmann, O. & Gyllenberg, M. 2012. Equations with infinite delay: blending the abstract and the concrete. Journal of Differential Equations 252: 819-851; doi:10.1016/j.jde.2011.09.038.
• Fang C., Huang, W. Yi, Y. & Zhang, P. 2012. Dimension of stable sets and scrambled sets in positive finite entropy systems. Ergodic Theory and Dynamical Systems 32: 599-628; doi:10.1017/S0143385710000982.
• Geritz, S. A. H. & Gyllenberg, M. 2012. A mechanistic derivation of the DeAngelis–Beddington functional response. Journal of theoretical Biology 314: 106–108; doi:10.1016/j.jtbi.2012.08.030.
• Geritz, S. A. H. & Kisdi, É. 2012. Mathematical ecology: Why mechanistic models? Journal of Mathematical Biology (Perspectives in Mathematical Biology) 65:1411-1415.
• Gyllenberg, M., Liu, X. & Yan, P. 2012. An eco-epidemiological model in two competing species. Differential Equations and Applications, 4: 495-519.
• Gyllenberg, M., Pasic, M. & Rakotoson, J-M. 2012. In honor of Professor Jesus Ildefonso Diaz on the occasion of his 60th birthday. Differential Equations and Applications, 4: 1-2.
• Janson, S., Luczak, T., Turova, T. & Vallier, T. 2012. Bootstrap percolation on the random graph G(n,p). Annals of Applied Probability 22: 1989-2047.
• Karonen, I. 2012. Stable trimorphic coexistence in a lattice model of spatial competition with two site types. Journal of theoretical Biology 295: 77-85; doi:10.1016/j.jtbi.2011.10.022.
• Kisdi, E. 2012. Year-class coexistence in biennial plants. Theoretical Population Biology 82: 18-21; doi:10.1016/j.tpb.2012.03.003.
• Kisdi, É., Utz, M. & Gyllenberg, M. 2012. Evolution of condition-dependent dispersal. In: Clobert, J., Baguette, M., Benton, T. and Bullock, J. (eds.): Dispersal Ecology and Evolution, Oxford University Press, pp. 139-151.
• Norvaisas, P. & Kisdi, É. 2012. Revisiting Santa Rosalia to unfold a degeneracy of classic models of speciation. The American Naturalist 180: 388-393; doi:10.1086/667215.
• Priklopil, T. 2012. On invasion boundaries and the unprotected coexistence of two strategies. Journal of Mathematical Biology 64: 1137-1156; doi:10.1007/s00285-011-0448-y.
• Priklopil, T. 2012. Chaotic dynamics of allele frequencies in condition-dependent mating systems. Theoretical Population Biology 82: 109–116; doi:10.1016/j.tpb.2012.06.001.
• Service, R. 2012. A Ramsey theorem with an application to sequences in Banach spaces. Canadian Mathematical Bulletin 55: 410-417; doi:10.4153/CMB-2011-073-5.

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• Cao, F., Gyllenberg, M. & Wang, Yi. 2011. Asymptotic behavior of comparable skew-product semiflows with applications. Proceedings of the London Mathematical Society 103: 271-293.
• Eskola, H., Geritz, S. & Gyllenberg, M. 2011. On the evolution of the timing of reproduction with non-equilibrium resident dynamics. Bulletin of Mathematical Biology 73: 1312-1332.
• Gyllenberg, M., Kisdi, E. & Utz M. 2011. Variability within families and the evolution of body condition dependent dispersal. J. Biol. Dyn. 5: 191-211.
• Gyllenberg, M., Kisdi, E. & Utz, M. 2011. Body condition dependent dispersal in a heterogeneous environment. Theor. Pop. Biol. 79: 139-154.
• Gyllenberg, M., Metz, J. A. J. & Service, R. 2011. When do optimisation arguments make evolutionary sense? In: Chalub, F.A.C. and Rodrigues, J.R. (eds.): The Mathematics of Darwins Legacy, Birkhäuser, Springer Basel, pp. 233 - 268.
• Gyllenberg, M. & Service, R. 2011. Necessary and sufficient conditions for the existence of an optimisation principle in evolution. Journal of Mathematical Biology 62: 359-369.
• Holt, R. D., Barfield, M., Filin, I. & Forde, S. 2011. Predation and the evolutionary dynamics of species ranges. The American Naturalist 178: 488-500.
• Kisdi, É & Priklopil, T. 2011. Evolutionary branching of a magic trait. Journal of Mathematical Biology 63: 361-397.
• Lv X., S. P. Lu & P. Yan. 2011. Periodic solutions of non-autonomous ordinary p-Laplacian systems. J. Appl. Math. Comput. 35: 11–18.
• Wang, W. & Yang, X. 2011. Multiple solutions of boundary value problems for impulsive differential equations. Mathematical Methods in the Applied Sciences 34: 1649–1657.
• Wang, Z., Huang, L. & Yang, X. 2011. H_infinity performance for a class of uncertain stochastic nonlinear Markovian jump systems with time-varying delay via adaptive control method. Applied Mathematical Modelling 35: 1983-1993.
• Yang, X., Wang, W. & Shen, J. 2011. Permanence of a logistic type impulsive equation with infinite delay. Applied Mathematics Letters 24: 420-427.

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Alizon, S. & Boldin, B. 2010. Within-host viral evolution in a heterogeneous environment: insights into the HIV co-receptor switch. Journal of Evolutionary Biology 23: 2625–2635.

Best, A., White, A., Kisdi, E., Antonovics, J., Brockhurst, M. A. & Boots, M. 2010. The evolution of host-parasite range. The American Naturalist 176: 63-71.

Corander, J., Gyllenberg, M. and Koski, T. 2010. Learning genetic population structures using minimization of stochastic complexity. Entropy 12: 1102-1124.

Diekmann O., Gyllenberg, M., Metz, J. A. J., Nakaoka S. & de Roos, A. 2010.  Daphnia revisited: Local stability and bifurcation theory for physiologically structured population models explained by way of an example. Journal of Mathematical Biology 61: 277-318.

Filin I. 2010. Target size and optimal life history when individual growth and energy budget are stochastic. Journal of theoretical Biology 264: 510-516.

Kisdi, É. 2010. Costly dispersal can destabilize the homogeneous equilibrium of a metapopulation. J. theor. Biol. 262: 279-283.

Kisdi, É & Geritz, S. A. H. 2010. Adaptive dynamics: A framework to model evolution in the ecological theatre. J. Math. Biol. (Perspectives in Mathematical Biology) 61: 165-169.

Lv X., P. Yan & S. P. Lu. 2010. Existence and global attractivity of positive periodic solutions of competitor-competitor-mutualist Lotka-Volterra systems with deviating arguments. Mathematical and Computer Modelling 51: 823–832.

Lv X., S. P. Lu & P. Yan. 2010. Existence of homoclinic solutions for a class of second-order Hamiltonian systems. Nonlinear Analysis: Theory, Methods & Applications 72: 390–398.

Lv X., S. P. Lu & P. Yan. 2010. Existence and global attractivity of positive periodic solutions of Lotka-Volterra predator-prey systems with deviating arguments. Nonlinear Analysis: Real World Applications 11: 574–583.

Lv, X., P. Yan & D. Liu. 2010. Anti-periodic solutions for a class of nonlinear second-order Rayleigh equations with delays. Commun. Nonlinear Sci. Numer. Simul. 15: 3593–3598.

Lv, X., S. P. Lu & P. Yan. 2010. Homoclinic solutions for nonautonomous second-order Hamiltonian systems with a coercive potential. Nonlinear Anal. 72: 3484–3490.

Service R. 2010. An easier extra head scheme for the Poisson process on R^n. Proceedings of the American Mathematical Society 138: 3703-3705.

Tal O., E. Kisdi & E. Jablonka. 2010. Epigenetic contribution to covariance between relatives. Genetics 184: 1037-1050.

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Boldin, B. 2009. On the evolutionary dynamics of virulence. Proceedings of the 3rd Nordic EWM Summer Scool for PhD students in Mathematics. TUCS general publication 53, Turku (Turku Centre for Computer Science), pp. 43-60, ISSN 1239-1905.

Boldin, B., Geritz, S. A. H. & Kisdi, E. 2009. Superinfections and adaptive dynamics of pathogen virulence revisited: A critical function analysis. Evol. Ecol. Res. 11: 153-175.

Corander J., Gyllenberg, M. & Koski, T. 2009. Bayesian unsupervised classification framework based on stochastic partitions of data and a parallel search strategy. Advances in Data Analysis and Classification 3: 217-243.

Eskola, H. 2009. On the evolution of the timing of reproduction. Theor. Pop. Biol. 75: 98-108.

Filin, I. 2009. A diffusion-based approach to stochastic individual growth and energy budget, with consequences to life-history optimization and population dynamics. Journal of Evolutionary Biology 22: 1252-1267.

Geritz, S. A. H., Gyllenberg, M. & Ondracek, P. 2009. Evolution of density-dependent dispersal in a structured metapopulation. Mathematical Biosciences 219: 142-148.

Gyllenberg, M. 2009. Equations with infinite delay. Oberwolfach Reports 6: 1350-1352.

Gyllenberg, M. 2009. Everyday mathematics (in Swedish: Vardagsmatematik). Yliopisto No 2: 37.

Gyllenberg, M. 2009. The blackboard -- and the smartboard (in Swedish: Svarta tavlan -- och den smarta). Yliopisto No 9: 54.

Gyllenberg, M. 2009. The herbarium contains much more than plants (in Swedish: Herbariet rymmer inte bara växter). Archimedes No 4: 31.

Gyllenberg, M., Preoteasa, D. & Yan, P. 2009. Ecology and evolution of symbiosis in metapopulations. Journal of Biological Dynamics 3: 39-57.

Gyllenberg, M. & Yan, P. 2009. On the number of limit cycles for three dimensional Lotka-Volterra systems. Discrete and Continuous Dynamical Systems - B 11: 347-352.

Gyllenberg, M. & Yan, P. 2009. New conditions for the intersection of orbits with the vertical isocline of the Liénard system. Mathematical and Computer Modelling 49: 906-911.

Gyllenberg, M. & Yan, P. 2009. Four limit cycles for a three-dimensional competitive Lotka-Volterra system with a heteroclinic cycle. Computers and Mathematics with Applications 58: 649-669.

Gyllenberg, M. & Yan, P. 2009. On a conjecture for three-dimensional competitive Lotka-Volterra systems with a heteroclinic cycle. Differential Equations and Applications 1: 473-490.

Jiang J., Mierczynski J. & Wang, Y. 2009. Smoothness of the carrying simplex for discrete-time competitive dynamical systems: A characterization of neat embedding. J. Differential Equations 246: 1623-1672.

Scharf, I., Filin, I. & Ovadia, O. 2009. A trade-off between growth and starvation endurance in a pit-building antlion. Oecologia 160: 453-460.

Scharf, I., Filin I., Subach A. & Ovadia O. 2009. A morphological and life history comparison between desert populations of a sit-and-pursue antlion, in reference to a co-occurring pit-building antlion.Naturwissenschaften 96: 1147-1156.

Svennungsen, T. O. & Kisdi, É. 2009. Evolutionary branching of virulence in a single infection model. J. theor. Biol. 257: 408-418.

Wang, Y. & Zheng, C. 2009. Normal and slow growth states of microbial populations in essential resource-based chemostat. Discrete Contin. Dyn. Syst. B. 12: 227-250.

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Diekmann, O., & Gyllenberg, M. 2008. The second half - with a quarter of a century delay. Mathematical Modelling of Natural Phenomena 3: 36-48.

Diekmann, O., Wang, Y. & Yan, P. 2008. Carrying simplices in discrete competitive systems and age-structured semelparous populations. Discrete Contin. Dyn. Syst. 20: 37-52.

Boldin, B. 2008. Persistence and spread of gastro-intestinal infections: the case of enterotoxigenic Escherichia coli in piglets. Bulletin of Mathematical Biology 70: 2077-2101.

Gyllenberg, M. 2008. Evolutionary suicide. ERCIM News 73: 18.

Gyllenberg, M. 2008. Free access - for everyone (in Swedish: Fri tillgång - för alla). Yliopisto No. 3, 57.

Gyllenberg, M. 2008. Names, too, can be translated (in Swedish: Också namn kan översättas). Arkhimedes No. 2, 35.

Gyllenberg, M. 2008. Rolls and biographies (in Swedish: Matriklar och biografier). Arkhimedes No. 4, 35.

Gyllenberg, M. 2008. A letter means so much... (in Swedish: Ett brev betyder så mycket...). Arkhimedes No. 6, 35.

Gyllenberg, M., Kisdi, É & Utz, M. 2008. Evolution of condition-dependent dispersal under kin competition. Journal of Mathematical Biology 57: 285-307.

Gyllenberg, M. & Silvestrov, D. S. 2008. Quasi-stationary phenomena in nonlinearly perturbed stochastic systems. Walter de Gruyter, Berlin - New York, 2008. 579+ix pages.

Nurmi, T., Geritz, S., Parvinen, K. & Gyllenberg, M. 2008. Evolution of specialization in resource utilization in structured metapopulations. Journal of Biological Dynamics 2: 297-322.

Shen, W. & Wang, Y. 2008. Carrying simplices in nonautonomous and random competitive Kolmogorov systems. J. Differential Equations 245: 1-29.

Virkki, A., Polo, O., Saaresranta, T., Laapotti-Salo, A., Gyllenberg, M., & Aittokallio, T. 2008. Overnight features of transcutaneous carbon dioxide measurement as predictors of individual metabolic status.Artificial Intelligence in Medicine 42: 55-65.

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Aittokallio, T., Gyllenberg, M., Polo, O. & Virkki, A. 2007. Parameter estimation of a gas exchange model from non-invasive carbon dioxide measurements during sleep. Mathematical Medicine and Biology 24: 225-249.

Corander, J., Gyllenberg, M. & Koski, T. 2007. Random partition models and exchangeability for Bayesian identication of population structure. Bulletin of Mathematical Biology 69: 797-815.

Diekmann, O., Getto, Ph. & Gyllenberg, M. 2007. Stability and bifurcation analysis of Volterra functional equations in the light of suns and stars. SIAM Journal on Mathematical Analysis 39: 1023-1069.

Diekmann, O. & Gyllenberg, M. 2007. Abstract delay equations inspired by population dynamics. In: H. Amann, W. Arendt, M. Hieber, F. Neubrander, S. Nicaise, J. von Below (eds.): Functional Analysis and Evolution Equations, Birkhäuser, pp. 187-200.

Diekmann, O., Gyllenberg, M. & Metz, J.A.J. 2007. Physiologically structured population models: Towards a general mathematical theory. In: Y. Takeuchi, Y. Iwasa, K. Sato (eds.): Mathemathics for Ecology and Environmental Sciences, Springer Verlag, pp. 5-20.

Eskola, T. M. & Geritz, S. A. H. 2007. On the derivation of discrete-time population models by varying within-season patterns of reproduction and aggression. Bulletin of Mathematical Biology 69: 329–346.

Fagerholm, H., Gyllenberg, M. & Högnäs, G. 2007. Competition and invasion in stochastic population models. Abo Akademi, Reports on Computer Science & Mathematics, Ser. A, No 191.

Geritz, S. A. H., Kisdi, É. & Yan, P. 2007. Evolutionary branching and long-term coexistence of cycling predators: Critical function analysis. Theoretical Population Biology 71: 424-435.

Gyllenberg, M. 2007. Mathematical aspects of physiologically structured populations: The contributions of J.A.J. Metz. Journal of Biological Dynamics 1: 3-44.

Gyllenberg, M. 2007. The most mathematical language in the world (in Swedish: Världens matematiskaste språk). Arkhimedes 2: 35.

Gyllenberg, M. 2007. Success stories in biomathematics (in Finnish: Biomatematiikan menestystarinoita) Arkhimedes 3: 26-28.

Gyllenberg, M. 2007. Where do we put the limit? (in Swedish: Var skall man dra gränsen?) Arkhimedes 4: 31.

Gyllenberg, M. 2007. Does modelling of complex biological systems require new types of mathematics? In: R. van Driel (ed.): Systems Biology: a Grand Challenge for Europe, European Science Foundation, IREG, Strasbourg, pp. 16-19.

Kisdi, É. 2007. No direct selection to increase offspring number of bet-hedging strategies in large populations: Simons' model revisited. Journal of Evolutionary Biology 20: 2072-2074.

Kisdi, É. & B. Oborny. 2007. Spatial ecology: habitat loss and fragmentation In: E. Pásztor & B. Oborny (eds): Ecology, Nemzeti Tankönyvkiadó Rt., Budapest, pp. 312-332. In Hungarian

Liu, X. & Xiao, D. 2007. Complex dynamic behaviors of a discrete-time predator-prey system. Chaos, Solitons and Fractals 32: 80-94.

Utz, M., Kisdi, É & Doebeli, M. 2007. Quasi-local competition in stage-structured metapopulations: A new mechanism of pattern formation. Bulletin of Mathematical Biology 69:1649-1672.

Simeonov, I., Noykova, N. & Gyllenberg, M. 2007. Identification and extremum seeking control of the anaerobic digestion of organic wastes. Cybernetics and Information Technologies 7: 73-84.

Virkki, A., Polo, Gyllenberg, M. & Aittokallio, T. 2007. Can carotoid body perfusion act as a respiratory controller? Journal of Theoretical Biology 249: 737-748.

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Aittokallio, T., Gyllenberg, M., Polo, O., Toivonen, J. & Virkki, A. 2006. Model-based analysis of mechanisms responsible for sleep-induced carbon dioxide differences. Bulletin of Mathematical Biology 68: 315-341.

Corander, J., Gyllenberg, M. & Koski, T. 2006. Bayesian model learning based on parallel MCMC strategy. Statistics and Computing, 16: 355-362.

Diekmann, O., Gyllenberg, M. & Metz, J. A. J. 2006. Physiologically structured population models: Towards a general mathematical theory. In: Y. Takeuchi, Y. Iwasa & K. Sato (eds.): Mathemathics for Ecology and Environmental Sciences, Springer, Berlin-Heidelberg, pp. 5-20.

Geritz, S. A. H., Gyllenberg, M. & Yan, P. 2006. Plant growth and the optimal sharing of photosynthetic products with a mycorrhizal symbiont. Evolutionary Ecology Research 8:577-590.

Gyllenberg, M. 2006. Stability and bifurcation analysis of models of physiologically structured populations. Mathematisches Forschungsinstitut Oberwolfach Report 24: 66-68.

Gyllenberg, M., Lant, T. & Thieme, H. 2006. Perturbing evolutionary systems on dual spaces by cumulative outputs. Differential and Integral Equations 19: 401-436.

Gyllenberg, M., Yan, P. & Wang, Y. 2006. A 3D competitive Lotka-Volterra system with three limit cycles: a falsification of a conjecture by Hofbauer and So. Appl. Math. Lett. 19: 1-7.

Gyllenberg M., Yan, P. & Wang, Y. 2006. Limit cycles for competitor-competitor-mutualist Lotka-Volterra systems. Physica D 221: 135-145.

Kisdi, É. 2006. Trade-off geometries and the adaptive dynamics of two co-evolving species. Evolutionary Ecology Research 8: 959-973.

Kisdi, É. & Liu, S. 2006. Evolution of handling time can destroy the coexistence of cycling predators. Journal of evolutionary Biology 19: 49-58.

Liu, X. & Xiao, D. 2006. Bifurcations in a discrete Lotka-Volterra predator-prey system. Discrete and Continuous Dynamical Systems ser. B 6:559-572.

Meszéna, G., Gyllenberg, M., Pásztor, L. & Metz, J. A. J. 2006. Competitive exclusion and limiting similarity: A unified theory. Theoretical Population Biology 69: 68-87.

Yan, P. & Gyllenberg, M. 2006. On a conjecture of Qi-type integral inequalities. Journal of Inequalities in Pure and Applied Mathematics vol. 7 (4), Article 146.

Yan, P. & Gyllenberg, M. 2006. On an open problem of integral inequalities. Journal of Inequalities in Pure and Applied Mathematics vol. 7 (5), Article 170.

Yan, P. & Liu, S. 2006. SEIR epidemic model with delay. Journal of the Australian Mathematical Society, Series B - Applied Mathematics 48: 119-134.

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Dawyndt, P., Thompson, F. L., Austin, B., Swings, J., Koski, T. & Gyllenberg, M. 2005. Application of sliding window discretization and minimization of stochastic complexity for the analysisi of FAFLP genotyping fingerprint patterns of Vibrionaceae. International Journal of Systematic and Evolutionary Microbiology 55: 57-66.

Geritz, S. A. H. 2005. Resident-invader dynamics and the coexistence of similar strategies. Journal of Mathematical Biology 50: 67-82.

Geritz, S. A. H. & Gyllenberg, M. 2005. Seven answers from adaptive dynamics. Journal of evolutionary Biology 18: 1174-1177.

Gyllenberg, M. 2005. Review of "Mathematics in population biology" by Horst R. Thieme. Matematical Biosciences 193: 13-18.

Gyllenberg, M. 2005. Review of "Differential equations and mathematical biology" by D.S. Jones and B.D. Sleeman. Matematical Biosciences 193: 19-24.

Gyllenberg, M. 2005. Metapopulations. In: P. Haccou and P. Jagers (Eds.): Branching Processes in Biology: Variation, Growth, Extinction. Cambridge University Press, pp. 249-265.

Gyllenberg, M. & Jagers, P. 2005. Branching processes and structured population dynamics. In: P. Haccou and P. Jagers (Eds.): Branching Processes in Biology: Variation, Growth, Extinction. Cambridge University Press, pp. 94-106.

Gyllenberg, M. & Meszéna, G. 2005. On the impossibility of coexistence of infinitely many strategies. Journal of Mathematical Biology, 50: 133-160.

Gyllenberg, M. & Wang, Y. 2005. Periodic tridiagonal systems modeling competitive-cooperative ecological interactions. Discrete and Continuous Dynamical Systems-A, 5: 511-521.

Kisdi, E. & Gyllenberg, M. 2005. Adaptive dynamics and the paradigm of diversity. Journal of evolutionary Biology 18: 1170-1173.

Kisdi, E. & Utz, M. 2005. Does quasi-local competition lead to pattern formation in metapopulations? An explicit resource competition model. Theoretical Population Biology 68: 133-145.

Meszéna, G., Gyllenberg, M., Jacobs, F. J. & Metz, J. A. J. 2005. Link between population dynamics and dynamics of Darwinian evolution Physical Review Letters 95, 078105.

Rantanen, V-V., Gyllenberg, M., Koski, T. & Johnson, M.S. 2005. A priori contact preferences in molecular recognition. Journal of Bioinformatics and Computational Biology 3: 861-890.

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Austin, B., Dawyndt, P., Gyllenberg, M., Koski, T., Lund, T., Swings, J., Thompson, F.L. 2004. Sliding window discretization: A new method for multiple band matching of bacterial genotyping fingerprints.Bulletin of Mathematical Biology 66: 1575-1596.

Geritz, S. A. H. & É. Kisdi. 2004. On the mechanistic underpinning of discrete-time population models with complex dynamics. Journal of theoretical Biology 228: 261-269.

Geritz, S. A. H., Kisdi, É., Meszéna, G. & Metz, J. A. J. 2004. Adaptive dynamics of speciation: Ecological underpinnings. In: U. Dieckmann, M. Doebeli, J.A.J. Metz & D. Tautz (Eds.) Adaptive speciation, Cambridge University Press, pp. 54-75.

Gyllenberg, M., Hanski, I. & Metz, J. A. J. 2004. Spatial dimensions of population viability. In: R. Ferrière, U. Dieckmann and D. Couvet (Eds.) Evolutionary Conservation Biology, Cambridge University Press, pp. 59-80.

Gyllenberg, M. & Wang Y. 2004. Dynamics of the periodic type-K competitive Kolmogorov systems. Journal of Differential Equations 205: 50-76.

Gyllenberg, M., Wang, Y. & Jiang, J. 2004. Asymptotic spatial homogeneity in a class of periodic quasimonotone reaction-diffusion systems with a first integral. Nonlinear Analysis 59: 235-244.

Gyllenberg, M., Yan, P. & Jiang, J. 2004. The qualitative behavior of a second order system with zero diagonal coefficient. Journal of Mathematical Analysis and Applications 291: 322-340.

Kisdi, É. 2004. Conditional dispersal under kin competition: Extension of the Hamilton-May model to brood size-dependent dispersal. Theoretical Population Biology 66: 369-380.

Kisdi, É. 2004. Optimal body size, density-dependent selection gradients, and phenotypic variance under asymmetric competition. Ecology 85: 1460-1467.

Kisdi, É. & Gyllenberg, M. 2004. On some misconceptions about adaptive dynamics.  TUCS Technical Report 624.

Lehtonen, J. V., Still, D-J., Rantanen, V-V., Ekholm, J., Björklund, D., Iftikhar, Z., Huhtala, M., Jussila, A., Jaakkola, J., Pentikäinen, O., Nyrönen, T., Salminen, T., Gyllenberg, M., % Johnson, M. S. 2004. BODIL: A molecular modeling environment for structure-function analysis and drug discovery. Journal of Computer-Aided Molecular Design 18: 401-419.

Noykova, N. & Koprinkova, P. 2004. Two approaches for modeling of microbial population dynamics: an example of anaerobic wastewater treatment. Journal of Ecological Engineering and Environmental Protection 3: 59-66.

Simeonov, I., Noykova, N. & Stoyanov, S. 2004. Modelling and extremum seeking control of the anaerobic digestion. IFAC Workshop DECOM-TT, Bansko, Bulgaria, Oct. 3-5 2004, pp 289-294.

Yan, P. & Jiang, J. 2004. Periodic solutions of general autonomous system of Lienard Type. Applicable Analysis 83(7): 735-746.

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Aittokallio, T., Gyllenberg, M., Saaresranta, T., & Polo, O. 2003. Prediction of inspiratory flow shapes during sleep with a mathematical model of upper airway forces. SLEEP 26: 857-63.

Bowers, R. G., White, A., Boots, M., Geritz, S. A. H. & Kisdi, É. 2003. Evolutionary branching/speciation: Contrasting results from systems with explicit or emergent carrying capacities. Evol. Ecol. Res. 5: 883-891.

Diekmann, O., Gyllenberg, M. & Metz, J. A. J. 2003. Steady state analysis of structured population models. Theoretical Population Biology 63: 309-338.

Gál, R. I. & Geritz, S. A. H. 2003. A theory of endogenous preference adaptation. (Hungarian) In: R. I. Gál & Z. Szántó (Eds.): "Theory of action and social research", Közgazdasági Szemle Alapítvány, Budapest, pp. 48-68.

Gyllenberg, M., Carlsson, J. & Koski, T. 2003. Bayesian Network Classification of Binarized DNA Fingerprinting Patterns. In: V. Capasso (Ed.): Mathematical Modelling and Computing in Biology and Medicine, Progetto Leonardo, Bologna, pp. 60-66.

Gyllenberg, M., Jacobs, F. J. A. & Metz, J. A. J. 2003. On the Concept of Attractor for Community-Dynamical Processes. II: The Case of Structured Populations Journal of Mathematical Biology 47: 235-248.

Gyllenberg, M., Osipov, A. & Päivärinta, L. 2003. On determining individual behaviour from population data. In: D. Haroske, T. Runst and H.-J. Schmeisser (Eds.): Function Spaces, Differential Operators, Nonlinear Analysis. The Hans Triebel Anniversary Volume. Birkhäuser, Basel, pp. 329-339.

Kisdi É. 2003. Reinforcement with multiple mating. TREE 18: 165-166.

Kisdi, É. & Geritz, S. A. H. 2003. On the coexistence of perennial plants by the competition-colonization trade-off. Am. Nat. 161: 350-354.

Kisdi, É. & Geritz, S. A. H. 2003. Competition-colonization trade-off between perennial plants: Exclusion of the rare species, hysteresis effects, and the robustness of coexistence under replacement competition. Evol. Ecol. Res. 5: 529-548.

Parvinen, K., Dieckmann, U., Gyllenberg, M., & Metz, J. A. J. 2003. Evolution of dispersal in metapopulations with local density dependence and demographic stochasticity Journal of Evolutionary Biology 16: 143-153.

Rantanen, V-V., Gyllenberg, M., Koski, T., & Johnson, M. S. 2003. A Bayesian molecular interaction library. Journal of Computer-Aided Molecular Design 17: 435-461.

Wang, Y. & Zhao, X. 2003. Convergence in monotone and subhomogenous discrete dynamical systems on product Banach spaces. Bull. London Math. Soc. 35: 681-688.

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Aittokallio, T., Gyllenberg, M. & Polo, O. 2002. Adjustment of human respiratory system to increased upper airway resistance during sleep. Bulletin of Mathematical Biology 64: 3-28.

Geritz, S. A. H., Gyllenberg, M., Jacobs, F. J. A. & Parvinen, K. 2002. Invasion dynamics and attractor inheritance. Journal of Mathematical Biology 44: 548-560.

Gyllenberg, M. & Koski, T. 2002. Bayesian predictiveness, exchangeability and sufficientness in bacterial taxonomy. Mathematical Biosciences 177-178: 161-184.

Gyllenberg, M. & Koski, T. 2002. Tree augmented classification of binary data minimizing stochastic complexity. University of Linköping, LiTH-MAT-R-2002-04.

Gyllenberg, M. Koski, T., Dawyndt, P., Lund, T., Thompson, F., Austin, B. & Swings,J. 2002. New methods for the analysis of binarized BIOLOG GN data of Vibrio species: Minimization of stochastic complexity and cumulative classification. Systematic and Applied Microbiology 25: 403-415.

Gyllenberg, M., Osipov, A. & Päivärinta, L. 2002. The inverse problem of age-structured population dynamics. Journal of Evolution Equations 2: 223-239.

Gyllenberg, M., Parvinen, K. & Dieckmann, U. 2002. Evolutionary suicide and evolution of dispersal in structured metapopulations. Journal of Mathematical Biology 45: 79-105.

Gyllenberg, M., Preoteasa, D. & Saikkonen, K. 2002. Vertically transmitted symbionts in structured host metapopulations. Bulletin of Mathematical Biology 64: 959-978.

Gyllenberg, M. & Yan Ping. 2002. The Generalized Liénard Systems. Discrete and Continuous Dynamical Systems, Series A, 8: 1043-1057.

Gyllenberg, M. & Wang, Y. 2002. Dynamics of the periodic type-K competitive Kolmogorov systems.  TUCS Technical Report 492.

Kisdi, É. 2002. Dispersal: Risk spreading versus local adaptation. The American Naturalist 159: 579-596.

Mathias, A. & Kisdi, É. 2002. Adaptive diversification of germination strategies. Proc. R. Soc. Lond. B 269: 151-156.

Matter, S.F., Hanski, I. & Gyllenberg, M. 2002. A test of the metapopulation model of the species-area relationship. J. Biogeogr. 29: 977-983.

Müller, T. G., Noykva, N., Gyllenberg, M. & Timmer, J. 2002. Parameter identification in a dynamical model of anaerobic waste water treatment. Mathematical Biosciences 177-178: 147-160.

Noykova, N., Müller, T. G., Gyllenberg, M. & Timmer, J. 2002. Qualitative analyses of anaerobic wastewater treatment processes: identifiability and parameter estimation. Biotechnology and Bioengineering 78: 89-103.

Rantanen, V-V., Gyllenberg, M., Koski, T. & Johnson, M. S. 2002. A dissimilarity matrix between protein atom classes based on Gaussian mixtures. Bioinformatics 18: 1257-1263.

Saikkonen, K., Ion, D. & Gyllenberg, M. 2002. The persistence of fungal endophytes in grass metapopulations. Proc. R. Soc. Lond. B., 269: 1397-1403.

Wang, Y. 2002. Convergence to periodic solutions in periodic quasimonotone reaction-diffusion systems. J. Math. Anal. Appl. 268(1): 25-40.

Wang, Y. & Jiang, J. 2002. The long-run behavior of periodic competitive Kolmogorov systems. Nonlinear Analysis: Real World Applications 3: 471-485.

Wang, Y. & Jiang, J. 2002. Uniqueness and attractivity of the carrying simplex for discrete-time competitive dynamical systems. J. Differential Equations 186(2): 611-632.

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Aittokallio, T., Gyllenberg, M., Nevalainen, O. & Polo, O. 2001. Testing for periodicity in signals: an application to detect partial upper airway obstruction during sleep. Journal of Theoretical Medicine 3: 231-245.

Aittokallio, T., Gyllenberg, M. & Polo, O. 2001. A model of a snorer's upper airway. Mathematical Biosciences 170: 79-90.

Alvarez, L. H. R., Gyllenberg, M. & Shepp, L. A. 2001. Optimal harvesting in the presence of density dependent extinction probabilities.  TUCS Technical Report 431.

De Jong, T. J. & S. A. H. Geritz. 2001. The role of geitonogamy in the gradual evolution towards dioecy in cosexual plants. Selection 2: 133-146. PDF (Courtesy of Akadémiai Kiadó, Budapest)

Diekmann, O., Gyllenberg, M., Huang, H., Kirkilionis, M., Metz, J. A. J. & Thieme, H. R. 2001. On the formulation and analysis of general deterministic structured population models. II. Nonlinear theory.Journal of Mathematical Biology 43: 157-189.

Gyllenberg, H. G., Gyllenberg, M. & Koski, T. 2001. Sense in microbial taxonomy: Minimization of stochastic complexity as an objective taxonomic tool. In: S. G. Pandalai (Ed.): Recent Research Developments in Microbiology, 5, Research Signpost, pp. 211-221.

Gyllenberg, M. & Koski, T. 2001. Probabilistic models for bacterial taxonomy. International Statistical Review 69: 249-276.

Gyllenberg, M., Koski, T. & Lund, T. 2001. BinClass: A software package for classifying binary vectors. User's Guide.  TUCS Technical Report 411.

Gyllenberg M. & Metz, J. A. J. 2001. On fitness in structured metapopulations Journal of Mathematical Biology 43: 545-560.

Gyllenberg, M. & Parvinen, K. 2001. Necessary and sufficient conditions for evolutionary suicide. Bulletin of Mathematical Biology 63: 981-993.

Gyllenberg, M. & Yan, P. 2001. On a conjecture by Yang. Journal of Mathematical Analysis and Applications 264: 687-690.

Johnson, M. S., Lehtonen, J., Still, D-J., Rantanen, V-V. & Gyllenberg, M. 2001. BODIL: Ripeää proteiinien visualisointia Linuxissa. Tietoyhteys 4: 12-13.

Kisdi, É. 2001. Long-term adaptive diversity in Levene-type models. Evolutionary Ecology Research 3: 721-727.

Kisdi, É. & Geritz, S. A. H. 2001. Evolutionary disarmament in interspecific competition. Proc. R. Soc. Lond. B 268: 2589-2594.

Kisdi, É., Jacobs, F. J. A. & Geritz, S. A. H. 2001. Red Queen evolution by cycles of evolutionary branching and extinction. Selection 2:161-176. PDF (Courtesy of Akadémiai Kiadó, Budapest)

Mathias, A., Kisdi, É. & Olivieri, I. 2001. Divergent evolution of dispersal in a heterogeneous landscape. Evolution 55: 246-259.

Meszéna, G., Kisdi, É., Dieckmann, U., Geritz, S. A. H. & Metz, J. A. J. 2001. Evolutionary optimisation models and matrix games in the unified perspective of adaptive dynamics. Selection 2: 193-210. PDF(Courtesy of Akadémiai Kiadó, Budapest)

Metz, J. A. J. & Gyllenberg, M. 2001. How should we define fitness in structured metapopulation models? Including an application to the calculation of evolutionarily stable dispersal strategies. Proc. R. Soc. London B. 268: 499-508.

Noykova, N., Müller, T. G., Gyllenberg, M. & Timmer, J. 2001. Identifiability problems in a mathematical model of anaerobic digestion. In: V. Sgurev, K. Boyanon and M. Hadjiski (Eds.): Proceedings of the International Conference on Automatics and Informatics (May 31-June 2, 2001), Union of Automation and Informatics, Sofia (Bulgaria), pp. 37-40.

Rantanen, V-V., Denessiouk, K. A., Gyllenberg, M., Koski, T. & Johnson, M. 2001. A fragment library based on Gaussian mixtures predicting favorable molecular interactions. Journal of Molecular Biology, 313: 197-214.

Wang, Y. and Jiang, J. 2001. The convergence of a class of quasimonotone reaction-diffusion systems. J. London Math. Soc. 64: 395-408.

Wang, Y. and Jiang, J. 2001. The general properties of discrete-time competitive dynamical systems. J. Differential Equations 176: 470-493.

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Aittokallio, T., Gyllenberg, M., Järvi, J., Nevalainen, O. & Polo, O. 2000. Detection of high-frequency respiratory movements during sleep. Computer Methods and Programs in Biomedicine, 61: 171 - 185.

Diekmann, O., Gyllenberg, M. & Thieme, H. R. 2000. Lack of uniqueness in transport equations with a nonlocal nonlinearity. Mathematical Models and Methods in Applied Sciences 10: 581-592.

Fränti, P., Gyllenberg, H. G., Gyllenberg, M., Kivijärvi, J., Koski, T., Lund, T. & Nevalainen, O. 2000. Minimizing stochastic complexity using local search and GLA with applications to classification of bacteria.BioSystems, 57: 37-48.

Geritz, S. A. H. & Kisdi, É. 2000. Adaptive dynamics in diploid, sexual populations and the evolution of reproductive isolation. Proc. R. Soc. Lond. B 267:1671-1678.

Gyllenberg, M., Koski, T. & Lund, T. 2000. Applying the EM-algorithm to classification of bacteria. In F. Naghdy, F. Kurfess, H. Ogata, E. Szczerbicki, H. Bother and H. Tlanfield (Eds.): Proceedings of the International ICSC Congress on Intelligent Systems and Applications, Vol. 2, pp. 65-71.

Gyllenberg, M., Koski, T., Lund, T. & Nevalainen, O. 2000. Clustering by adaptive local search with multiple search operators. Pattern Analysis and Applications 3: 348-357.

Gyllenberg, M. , Koski, T., Lund, T. & Nevalainen, O. 2000. On self-adaptation in multioperator local search. In: R. J. Howlett and L. C. Jain (Eds.): Proceedings of the Fourth International Conference on Knowledge-Based Intelligent Engineering Systems and Allied Technologies, Institute of Electrical and Electronics Engineers, Brighton, UK, Vol.1, pp. 181-184.

Gyllenberg, M. & Sigmund, K. 2000. The Fibonacci chimney. The Mathematical Intelligencer 22:46.

Gyllenberg, M. & Silvestrov, D. S. 2000. Nonlinearly perturbed regenerative processes and pseudo-stationary phenomena for stochastic systems. Stochastic Processes and Their Applications 86: 1-27.

Gyllenberg, M. & Silvestrov, D. S. 2000. Cramér-Lundberg approximation for nonlinearly perturbed risk processes. Insurance: Mathematics and Economics, 26: 75-90.

Kisdi, É. 2000. Sensitivity analysis, indirect interactions and inconsistency problems. Trends in Ecology and Evolution 15:329.

Noykova, N. & Gyllenberg, M. 2000. Sensitivity analysis and paramter estimation in a model of anaerobic waste water treatment with substrate inhibition. Bioprocess Engineering 23: 343-349.

Pásztor, E., Kisdi, É. & Meszéna, G. 2000. Jensen's inequality and optimal life history strategies in stochastic environments. Trends in Ecology and Evolution 15:117-118.

Yan Ping & Jiang Ji Fa. 2000. A necessary and sufficient condition for oscillation of the generalized Liénard system. (Chinese) Math. Appl. 13(4): 16-20.

Yan Ping & Jiang Ji Fa. 2000. Existence of nontrivial periodic solutions for the generalized Liénard equation. (Chinese) Math. Appl. 13(3): 31-34.

Yan Ping & Jiang Ji Fa. 2000. The existence and nonexistence of periodic solutions of generalized Liénard equations. (Chinese) J. Systems Sci. Math. Sci. 20(2): 210-216.

Yan Ping & Wu Jun A. 2000. Periodic free boundary problem arising from continuous casting processes. (Chinese) Math. Appl. 13(1): 51-55.

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Aittokallio, T., Gyllenberg, M., Kuusela, T., Hietarinta, J. & Multamäki, T. 1999. Improving the false nearest neighbors method with graphical analysis. Physical Review E, 60: 416-421.

Geritz, S. A. H. , Van der Meijden, E. & Metz, J. A. J. 1999. Evolutionary dynamics of seed size and seedling competitive ability. Theoretical Population Biology 55: 324-343.

Gyllenberg, H. G., Gyllenberg, M., Koski, T., Lund, T., Mannila, H. & Meek, C. 1999. Singling out ill-fit items in a classification. Application to the taxonomy of Enterobacteriaceae. Archives of Control Sciences 9: 97-105.

Gyllenberg, H. G., Gyllenberg, M., Koski, T., Lund, T. & Schindler, J. 1999. An assessment of cumulative classification. Quantitative Microbiology 1: 7-27.

Gyllenberg, H. G., Gyllenberg, M., Koski, T., Lund, T. & Schindler, J. 1999. Enterobacteriaceae taxonomy approached by minimization of stochastic complexity. Quantitative Microbiology 1: 157-170.

Gyllenberg, M., Hemminki, J. & Tammaru, T. 1999. Allee effects can both conserve and create spatial heterogeneity in population densities. Theoretical Population Biology 56: 231-242.

Gyllenberg, M., Koski, T., Lund, T. & Gyllenberg, H. G. 1999. Bayesian predictive identification and cumulative classification of bacteria. Bulletin of Mathematical Biology 61: 85-111.

Gyllenberg, M. & Osipov A. V. 1999. Limit cycles in the two-dimensional May problem. (in Russian) Differentialnye Uravneniya 35: 733-737. English translation: Differential Equations 35: 733-738.

Gyllenberg, M. & Osipov A. V. 1999. Types of dynamic behavior in the Hanski-Henttonen model. (in Russian) Differentialnye Uravneniya 35: 882-888. English translation: Differential Equations 35: 888-895.

Gyllenberg, M. & Silvestrov, D. S. 1999. Quasi-stationary phenomena for semi-Markov processes. In: J. Janssen and N. Limnios (Eds.): Semi-Markov Models and Applications, Kluwer Academic Publishers, Dordrecht (The Netherlands), pp. 33-60.

Gyllenberg, M. & Silvestrov, D. S. 1999. Cramér-Lundberg and diffusion approximations for nonlinearly perturbed risk processes including numerical computation of ruin probabilities. Theor. Stoch. Proc. 5(21): 6-21.

Kisdi, É. 1999. Evolutionary branching under asymmetric competition. Journal of theoretical Biology 197: 149-162.

Kisdi, É. & Geritz, S. A. H. 1999. Adaptive dynamics in allele space: Evolution of genetic polymorphism by small mutations in a heterogeneous environment. Evolution 53: 993-1008.

Yan Ping & Jiang Ji Fa. 1999. The center of the system x'=h-F, y'=-g. (in Chinese) J. Systems Sci. Math. Sci. 19: 353-358.

Yan Ping & Sun Guozheng. 1999. A strengthened Carleman's inequality. J. Math. Anal. Appl. 240: 290-293.

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Diekmann, O., Gyllenberg, M., Metz, J. A. J. & Thieme, H. R. 1998. On the formulation and analysis of general deterministic structured population models. I. Linear theory. Journal of Mathematical Biology 36: 349-388.

Geritz, S. A. H. 1998. Co-evolution of seed size and seed predation. Evolutionary Ecology 12: 891-911.

Geritz, S. A. H., Kisdi, É., Meszéna, G. & Metz, J. A. J. 1998. Evolutionarily singular strategies and the adaptive growth and branching of the evolutionary tree. Evolutionary Ecology 12: 35-57.

Gyllenberg, H. G., Gyllenberg, M., Koski, T. & Lund, T. 1998. Stochastic complexity as a taxonomic tool. Computer Methods and Programs in Biomedicine 56: 11-22.

Gyllenberg, M. & Koski, T. 1998. Posterior predictive distributions for classification of multivariate binary data. University of Turku, Institute of Applied Mathematics, Research Reports A21.

Gyllenberg, M., Koski, T. & Lund, T. 1998. Applications of machine learning to microbial taxonomy. (in Finnish) Tietojenkäsittelytiede (Journal of the Finnish Society for Computer Science), December 1998, pp. 23-24.

Gyllenberg, M. & Silvestrov, D. S. 1998. Quasi-stationary phenomena in semi-Markov models. In: J. Janssen and N. Limnios (Eds.): Proceedings of the Second International Symposium on Semi-Markov Models: Theory and Applications. Université de Technologie de Compiègne. pp. 87-93.

Kisdi, É. 1998. Frequency dependence versus optimization. Trends in Ecology and Evolution 13:508.

Kisdi, É., Meszéna, G. & Pásztor, E. 1998. Individual optimization: Mechanisms shaping the optimal reaction norm. Evolutionary Ecology 12: 211-221.

Persson, L., Leonardsson, K., de Roos, A., Gyllenberg, M. & Christensen, B. 1998. Ontogenetic scaling of foraging rates and the dynamics of a size-structured consumer-resource model. Theoretical Population Biology 54: 270-293.

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Geritz, S. A. H., Metz, J. A. J., Kisdi, É. & Meszéna, G. 1997. Dynamics of adaptation and evolutionary branching. Physical Review Letters 78: 2024-2027.

Gyllenberg, H. G., Gyllenberg, M., Koski, T., Lund, T., Schindler, J. & Verlaan, M. 1997. Classification of Enterobacteriaceae by minimization of stochastic complexity. Microbiology 143: 721-732.

Gyllenberg M. & Hanski, I. 1997. Habitat deterioration, habitat destruction and metapopulation persistence in a heterogeneous landscape. Theoretical Population Biology 52: 198-215.

Gyllenberg, M., Hanski, I. & Hastings, A. 1997. Structured metapopulation models. In: I. Hanski & M. Gilpin (eds.): Metapopulation dynamics: Ecology, genetics and evolution. Academic Press, London, pp. 93-122.

Gyllenberg, M., Hanski, I. & Lindström T. 1997. Continuous versus discrete single species population models. Bulletin of Mathematical Biology 59: 679-705.

Gyllenberg, M. & Koski, T. 1997. On predictive classifications of binary vectors. Proceedings of the Sixth International Workshop on Artificial Intelligence and Statistics, Ft. Lauderdale (Florida), pp. 239-242.

Gyllenberg, M., Koski, T. & Verlaan, M. 1997. Classification of binary vectors by stochastic complexity. Journal of Multivariate Analysis 63: 47-72.

Gyllenberg, M., Osipov A. V. & Söderbacka, G. 1997. Effekt sohraneniya attraktora pri dvumernom vozmushchenii. Differentialnye Uravneniya, 33: 859-860. English translation in Differential Equations.

Gyllenberg, M. & Silvestrov, D.S. 1997. Exponential asymptotics for perturbed renewal equations and pseudo-stationary phenomena for stochastic systems. Umea University, Department of Mathematical Statistics, Research Report 3. ISSN 1401-730X.

Hanski, I. & Gyllenberg, M. 1997. Uniting two general patterns in the distribution of species. Science 275: 397-400.

Meszéna, G., Czibula, I. & Geritz, S. A. H. 1997. Adaptive dynamics in a two-patch environment: A toy model for allopatric and parapatric speciation. Journal of Biological Systems 5: 265-284.

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Gyllenberg, M., Hanski, I. & Lindström, T. 1996. A predator-prey model with optimal suppression of reproduction in the prey. Mathematical Biosciences 134: 119-152.

Gyllenberg, M. & Koski, T. 1996. Numerical taxonomy and the principle of maximum entropy. Journal of Classification 13: 213-229.

Gyllenberg, M. & Koski, T. 1996. Posterior predictive distributions and maximal predictiveness for classification of multivariate binary data. Department of Mathematics, Royal Institute of Technology, Stockholm, TRITA-MAT-1996-MS-01.

Gyllenberg, M., Koski, T., Reilink E. & Verlaan, M. 1996. Probabilistic aspects of numerical identification in microbiology. In: Shiryaev, A. N, Melnikov, A. V., Niemi, H. & Valkeila, E. (eds.): Frontiers in pure and applied probability, TVP Science Publishers, Moscow, pp. 67-78.

Gyllenberg, M., Osipov, A. V. and Söderbacka, G. 1996. Bifurcation analysis of a metapopulation model with sources and sinks. Journal of Nonlinear Science 6: 329-366.

Hanski, I., Moilanen, A. & Gyllenberg, M. 1996. Minimum viable metapopulation size. The American Naturalist, 147: 527-541.

Metz, J. A. J., Geritz, S. A. H., Meszéna, G., Jacobs, F. J. A. & Van Heerwaarden, J. S. 1996. Adaptive dynamics: A geometrical study of the consequences of nearly faithfull reproduction. In: S. J. van Strien & S. M. Verduyn-Lunel (eds.): Stochastic and spatial structures of dynamical systems. North Holland, Elsevier, pp. 183-231.

Pásztor, E., Meszéna, G. & Kisdi, É. 1996. R0 or r: A matter of taste? Journal of evolutionary Biology 9: 511-518.

Yordanova, S. T. & Noykova, N. 1996. An investigation of the model of aerobic waste water treatment processes. Bioprocess Engineering 15: 201-203.

Yordanova, S. T. & Noykova, N. 1996. Influence of perturbations on the waste water treatment process. Chemical and Biochemical Engineering Quarterly, Zagreb, 10: 9-14.

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Diekmann, O. Gyllenberg, M. & Thieme, H. R. 1995. Perturbing evolutionary systems by cumulative outputs and step responses. Differential and Integral Equations 8: 1205-1244.

Geritz, S. A. H. 1995. Evolutionarily stable seed polymorphism and small-scale spatial variation in seedling density. The American Naturalist 146: 685-707.

Gyllenberg, M. & Koski, T. 1995. A taxonomic associative memory based on neural computation. Binary 7: 61-66.

Gyllenberg, M., Koski, T. & Lahti, T. 1995. Associativ memories for clusters of binary vectors using MATLAB(TM) Neural Network Toolbox. In: Lars Langemyr (ed.): Proceedings of Nordic MATLAB Conference '95, Comsol, Stockholm, Vol. II, pp. 49-54.

Jablonka, É., Oborny, B., Molnár, I., Kisdi, É., Hofbauer, J. & Czárán, T. 1995. The adaptive advantage of phenotypic memory in changing environments. Philosophical Transanctions of the Royal Society, London, B 350: 133-141.

Kisdi, É. & Meszéna, G. 1995. Life histories with lottery competition in a stochastic environment: ESSs which do not prevail. Theoretical Population Biology 47: 191-211.

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Gyllenberg, M. 1994. Matematiikka luonnontieteiden kielenä. (English summary: Mathematics as the language of science) Arkhimedes 3: 230-238.

Gyllenberg, M., Högnäs, G. & Koski, T. 1994. Population models with environmental stochasticity. Journal of Mathematical Biology 32: 93-108.

Gyllenberg, M., Högnäs, G. & Koski, T. 1994. Null recurrence in a stochastic Ricker model. In: Gyllenberg, M. & Persson, L. E. (eds.): Analysis, Algebra and Computers in Mathematics. Proceedings of the 21th Nordic Congress of Mathematicians, Marcel Dekker, New York - Basel - Hong Kong, pp. 147-166.

Gyllenberg, M., Koski, T., Reilink, E., & Verlaan, M. 1994. Nonuniqueness in probabilistic numerical identification of bacteria. Journal of Applied Probability 31: 542-548.

Gyllenberg, M., Koski, T. & Verlaan, M. 1994. Clustering and quantization of binary vectors using stochastic complexity. In: Proceedings of the IEEE International Symposium on Information Theory, p. 390.

Gyllenberg, M. & Silvestrov, D. S. 1994. Quasistationary distributions of a stochastic metapopulation model. Journal of Mathematical Biology 33: 35-70.

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Diekmann, O., Gyllenberg, M., Metz, J. A. J. & Thieme, H. R. 1993. The "cumulative" formulation of (physiologically) structured population models. In: Ph. Clement & G. Lumer (eds.): Evolution Equations, Control Theory and Biomathematics, Marcel Dekker, New York, pp. 145-154.

Diekmann, O., Gyllenberg, M. & Thieme, H. R. 1993. Perturbing semigroups by solving Stieltjes renewal equations. Differential and Integral Equations 6: 155-181.

Diekmann, O., Gyllenberg, M. & Thieme, H. R. 1993. Perturbing evolutionary systems by cumulative outputs and step responses. Lulea University of Technology, Department of Applied Mathematics, Research Report 1993 04, ISRN HLU-TMAT-RES--93/4--SE.

Diekmann, O., Gyllenberg, M., Thieme, H. R. & Verduyn Lunel, S. M. 1993. A cell-cycle model revisited. Centrum for Wiskunde en Informatica, Report AM-R9305.

Gyllenberg, M. 1993. Does time lag of nutrient utilization justify Monod's model of bacterial growth? Bulletin of Mathematical Biology 55: 487-489.

Gyllenberg, M., Gyllenberg, H. G., Koski, T. & Schindler, J. 1993. Nonuniqueness of numerical taxonomic structures. Binary 5: 138-144.

Gyllenberg, M., Koski, T. & Verlaan, M. 1993. On quantization of binary vectors using stochastic complexity. In: L. Mansson (ed.): Proceedings of the Sixth Joint Swedish-Russian International Workshop on Information Theory (Molle 1993), Student litteratur, Lund, pp. 240-244.

Gyllenberg, M., Söderbacka, G. & Ericsson, S. 1993. Does migration stabilize local population dynamics? Analysis of a discrete metapopulation model. Mathematical Biosciences 118: 25-49.

Hanski, I. & Gyllenberg, M. 1993. Two general metapopulation models and the core-satellite species hypothesis. The American Naturalist 142: 17-41.

Kisdi, É. & Meszéna, G. 1993. Density dependent life history evolution in fluctuating environments. In: C. W. Clark & J. Yoshimura (eds.): Adaptation in a stochastic environment, Lecture Notes in Biomathematics 98: 26-62, Springer Verlag, Berlin.

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Gyllenberg, M. & Hanski, I. 1992. Single-species metapopulation dynamics: A structured model. Theoretical Population Biology 42: 35-62.

Gyllenberg, M. & Webb, G. F. 1992. Asynchronous exponential growth of semigroups of nonlinear operators. J. Math. Anal. Appl. 167: 443-467.

Metz, J. A. J., Nisbet, R. M. & Geritz, S. A. H. 1992. How should we define "fitness" for general ecological scenarios? Trends in Ecology and Evolution 7: 198-202.

Oksanen, T., Oksanen, L. & Gyllenberg, M. 1992. Exploitation ecosystems in heterogenous habitat complexes II: Impact of small-scale heterogeneity on predator prey dynamics. Evolutionary Ecology 6: 383-398.

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