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Selected publications

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Peer-reviewed scientific publications

In Press

  • Vuorinen, P. J., Saulamo, K., Lecklin, T., Rahikainen, M., Koivisto, P. and Keinänen, M. (in press). Baseline concentrations of biliary PAH metabolites in perch (Perca fluviatilis) in the open Gulf of Finland and in two coastal areas. Journal of Marine Systems.

  • Rahikainen, M., Hoviniemi, K.-M., Mäntyniemi, S., Vanhatalo, J., Helle, I., Lehtiniemi, M., Pönni, J. and Kuikka, S. (in press). Impacts of eutrophication and oil spills on the Gulf of Finland herring stock. Can. J. Fish. Aquat. Sci. [Link]

  • Nevalainen, M., Helle, I. and Vanhatalo, J. (in press). Preparing for the unprecedented - towards quantitative oil risk assessment in the Arctic marine areas. Marine Pollution Bulletin [Link]

  • Whitlock R. E., Kopra, J., Pakarinen, T., Jutila, E., Leach, A., Levontin, P., Kuikka, S. and Romakkaniemi, A. (in press). Mark-recapture estimation of mortality and migration rates for sea trouti (Salmo trutta) in the northern Baltic Sea. ICES Journal of Marine Science

  • Kallasvuo, M., Vanhatalo, J. and Veneranta, L. (in press). Modeling the spatial distribution of larval fish abundance provides essential information for management. Canadian Journal of Fisheries and Aquatic Sciences


  • Njeru, C.M., Mohamed, S.A., Ekesi, S., Kiboi, S. and Kinyamario, J.I. and Maeda, E.E, (2017). Assessing stock and thresholds detection of soil organic carbon and nitrogen along an altitude gradient in an east Africa mountain ecosystem. Geoderma regional. [Link]

  • Maeda, E. E., Ma, X., Wagner, F., Kim, H., Oki, T., Eamus, D., and Huete, A. (2017). Evapotranspiration seasonality across the Amazon basin. Earth System Dynamics Discussions. [Link]


  • Mäkinen, J., Vanhatalo, J. (2016). Hydrographic responses to regional covariates across the Kara Sea Journal of Geophysical Research: Oceans [Link]

  • Pihlajamäki, M., Sarkki, S. and Karjalainen, T.P. (2016). Food or feed? The contribution of Baltic herring fisheries to food security and safety. In Anna S. Olsson, Sofia M. Araujo, and M. Fatima Vieira (eds.): Food futures: ethics, science and culture. Conference proceedings of EurSafe 2016, pages 239-243 (refereed). Wageningen Academic Publishers. [Link]

  • Ignatius, S. and Haapasaari, P. (2016). Addressing socio-cultural values in the use and management of Baltic herring. In Anna S. Olsson, Sofia M. Araujo, and M. Fatima Vieira (eds.): Food futures: ethics, science and culture. Conference proceedings of EurSafe 2016 , pages 233-238 (refereed). Wageningen Academic Publishers. [Link]

  • Helle, I., Jolma, A., Venesjärvi, R. (2016). Species and habitats in danger: Estimating the relative risk posed by oil spills in the northern Baltic Sea. Ecosphere 7(5):e01344. [Link]

  • Mølgaard, B., Vanhatalo, J., Aalto, P., Prisle, N.L. and Hämeri, K. (2016). Notably improved inversion of Differential Mobility Particle Sizer data obtained under conditions of fluctuating particle number concentrations.. Atmospheric Measurement Techniques, 9:741-751. [Link]

  • Vanhatalo, J., Hobday, J.A., Little, L.R. and Spillman, C.M. (2016). Downscaling and extrapolating dynamic seasonal marine forecasts for coastal ocean users. Ocean Modelling, 100:20-30 [Link]


  • Haapasaari P., Helle I., Lehikoinen A., Lappalainen J., and Kuikka S. (2015). A proactive approach for maritime safety policy making for the Gulf of Finland: seeking best practices. Marine Policy, 60:107-118. [Link]

  • Helle, I., Ahtiainen, H., Luoma, E., Hänninen, M. and Kuikka, S. (2015). A probabilistic approach for a cost-benefit analysis of oil spill management under uncertainty: A Bayesian network model for the Gulf of Finland. Journal of Environmental Management, 158:122-132. [Link]

  • Laurila-Pant, M., Lehikoinen, A., Uusitalo, L., Venesjärvi, R. (2015). How to value biodiversity in environmental management? Ecological Indicators, 55:1-11. [Link]

  • Lehikoinen, A., Hänninen, M., Storgård, J., Luoma, E., Mäntyniemi, S. and Kuikka, S. (2015). A Bayesian network for assessing the collision induced risk of an oil accident in the Gulf of Finland. Environmental Science and Technology, 49(9):5301-5309. [Link], [model code]

  • Mäntyniemi, S., Whitlock, R., Perälä, T., Blomstedt, P., Vanhatalo, J., Rincon, M. M., Kuparinen, A., Pulkkinen, H., and Kuikka, S. (2015). General State-space Population Dynamics Model for Bayesian Stock Assessment. ICES journal of Marine Sciences 72 (8): 2209-2222. [Link]

  • Uusitalo, L., Lehikoinen, A., Helle, I., Myrberg, K. (2015). An overview of methods to evaluate uncertainty of deterministic models in decision support. Environmental Modelling & Software, 63:24–31. [Link]


  • Blomstedt, P., Gauriot, R., Viitala, N., Reinikainen, T. and Corander, J. (2014). Bayesian predictive modeling and comparison of oil samples. Journal of Chemometrics, 28(1):52-59. [Link]

  • Holmgren, N., Norrström, N., Aps, R. and Kuikka, S. (2014) A concept of Bayesian Regulation in Fisheries Management. PLoS ONE 9(11): e111614. doi:10.1371/journal.pone.0111614 [Link]

  • Jolma, A., Lehikoinen, A., Helle, I. and Venesjärvi, R. (2014). A software system for assessing the spatially distributed ecological risk posed by oil shipping. Environmental Modelling & Software, 61:1-11. [Link]

  • Juntunen, T., Tsikliras, A.C., Mäntyniemi, S., Stergiou K.I. (2014). A Bayesian population model to estimate changes in the stock size in data poor cases using Mediterranean bogue (Boops boops) and picarel (Spicara smaris) as an example. Mediterranean Marine Science, 15(3):DOI:10.12681/mms.567. [Link]

  • Kuikka, S., Vanhatalo, J., Pulkkinen, H., Mäntyniemi, S. and Corander J. (2014). Experiences in Bayesian Inference in Baltic Salmon Management. Statistical Science, 29(1):42-49. [Link]

  • Lehikoinen, A., Helle, I., Klemola, E., Mäntyniemi, S., Kuikka, S. and Pitkänen H. (2014). Evaluating the impact of nutrient abatement measures on the ecological status of coastal waters: a Bayesian network for decision analysis. International Journal of Multicriteria Decision Making, 4(2):114-134. [Link]

  • Massiot-Granier, F., Prévost, E., Chaput, G., Potter, T., Smith, G., White, J., Mäntyniemi, S. and Rivot, E. (2014). Embedding stock assessment within an integrated hierarchical Bayesian life cycle modelling framework: an application to Atlantic salmon in the Northeast Atlantic. ICES Journal of Marine Sciences. [Link]

  • Rahikainen, M., Helle, I., Haapasaari, P., Oinonen, S., Kuikka, S., Vanhatalo, J., Mäntyniemi, S. and Hoviniemi, K.-M. (2014). Toward Integrative Management Advice of Water Quality, Oil Spills, and Fishery in the Gulf of Finland: A Bayesian Approach. AMBIO, 43:115-123. [Link]

  • Vanhatalo, J., Vetemaa, M., Herrero, A., Aho, T., Tiilikainen, R. (2014). By-Catch of Grey Seals (Halichoerus grypus) in Baltic Fisheries—A Bayesian Analysis of Interview Survey. PLoS ONE 9(11): e113836. [Link]


  • Altartouri, A., Ehrnsten, E., Helle, I., Venesjärvi, R. and Jolma, A. (2013). Geospatial Web Services for Responding to Ecological Risks Posed by Oil Spills. Photogrammetric Engineering & Remote Sensing, 79:905-914. [Link]

  • Haapasaari, P., Mäntyniemi, S., and Kuikka, S. (2013). Involving stakeholders in building integrated fisheries models using Bayesian methods. Environmental Management, 51(6):1247-1261. [Link]

  • Kelly (Letcher), R.A., Jakeman, A.J., Barreteau, O., Borsuk, M.E., ElSawah, S., Hamilton, S.H., Henriksen, H.J., Kuikka, S., Maier, H.R., Rizzoli, A.E., van Delden, H. and Voinov, A.A. (2013). Selecting among five common modelling approaches for integrated environmental assessment and management. Environmental Modelling & Software, 47:159–181. [Link]

  • Kuparinen, A., Mäntyniemi, S., Hutchings, J. and Kuikka, S. (2013). Biologiasta apua kalakantojen arviointiin ja kalastuksen säätelyyn. Luonnon Tutkija, 116(4):114-120. [Link]

  • Lehikoinen, A., Luoma, E., Mäntyniemi, S. and Kuikka, S. (2013) Optimizing the Recovery Efficiency of Finnish Oil Combating Vessels in the Gulf of Finland Using Bayesian Networks. Environmental Science and Technology, 47(4):1792-1799. [Link]

  • Mäntyniemi, S., Haapasaari, P., Kuikka, S. Parmanne, R., Lehtiniemi, M. and Kaitaranta, J. (2013). Incorporating stakeholders‘ knowledge to stock assessment: Central Baltic herring. Canadian Journal of Fisheries and Aquatic Scienses, 70:591-599. [Link]

  • Mäntyniemi, S., Uusitalo, L., Peltonen, H., Haapasaari, P. and Kuikka, S. (2013). Integrated age-structured length-based stock assessment model with uncertain process variances, structural uncertainty and environmental covariates: case of Central Baltic herring. Canadian Journal of Fisheries and Aquatic Sciences 70(9):1317-1326. [Link]

  • Pulkkinen, H. and Mäntyniemi, S. (2013) Maximum survival of eggs as the key parameter of stock-recruit meta-analysis: accounting for parameter and structural uncertainty. Canadian Journal of Fisheries and Aquatic Sciences, 70:527-533. [Link]

  • Rahikainen, M., Lindroos, M. and Kaitala, V. (2013). Stability of international fisheries agreements using precautionary bioeconomic harvesting strategies. Strategic Behavior and the Environment, 3(1-2):97-120. [Link]

  • Siipola, V., Mäntyniemi, S., Lehtimäki, M. and Tallberg, P. (2013). Separating biogenic and adsorbed pools of silicon in sediments using Bayesian inference. Silicon, 5(1):53-65,. [Link]

  • Vanhatalo, J., Riihimäki, J., Hartikainen, J., Jylänki, P., Tolvanen, V. and Vehtari A. (2013). GPstuff: Bayesian Modeling with Gaussian Processes. Journal of Machine Learning Research, 14:1175-1179. [Link]

  • Vanhatalo, J., Tuomi, L., Inkala, A., Helle, I. and Pitkänen, H. (2013). Probabilistic Ecosystem Model for Predicting the Nutrient Concentrations in the Gulf of Finland under Diverse Management Actions. Environmental Science & Technology, 47(1):334-341. [Link]

  • Veneranta, L., Hudd, R. and Vanhatalo, J. (2013) Reproduction areas of sea-spawning coregonids reflect the environment in shallow coastal waters. Marine Ecology Progress Series, 477:231-250. [Link]


  • Ahtiainen, H. and Vanhatalo, J. (2012). The Value of Reducing Eutrophication in European Marine Areas - A Bayesian Meta Analysis. Ecological Economics, 83: 1-10.[Link]

  • Barton,D.N., Kuikka, S., Varis, O., Uusitalo, L., Henriksen, H. J., Borsuk, M., de la Hera, A., Farmani, R., Johnson, S. and Linnell, J.D.C. (2012). Bayesian Networks in Environmental and Resource Management. Integrated Environmental Assessment and Management, 8:418-429.[Link]

  • Fernandes, J. A., Kauppila, P., Uusitalo, L., Fleming-Lehtinen, V., Kuikka, S. and Pitkänen, H. (2012). Evaluation of reaching the targets of the Water Framework Directive in the Gulf of Finland. Environmental Science and Technology, 46: 8220-8228.[Link]

  • Haapasaari, P., Mäntyniemi, S. and Kuikka, S. (2012). Baltic herring fisheries management: stakeholder views to frame the problem. Ecology and Society, 17(3): 36.[Link]

  • Haapasaari, P., Kulmala, S., and Kuikka, S. (2012). Growing into interdisciplinarity: how to converge biology, economics and social science in fisheries research? Ecology and Society, 17(1).[Link]

  • Hillary, R., Levontin, P., Kuikka, S., Mäntyniemi, S., Mosqueira, I. and Kell, L. (2012). Multi-level stock-recruit analysis: beyond steepness and into model uncertainty. Ecological Modelling, 242: 69-80.

  • Holmgren, N.M.A., Norrström, N., Aps, R. and Kuikka, S. (2012). MSY oriented management of Baltic Sea herring (Clupea harengus) during different ecosystem regimes. ICES Journal of Marine Science, 69.[Link]

  • Juntunen, T., Vanhatalo, J., Peltonen, H. and Mäntyniemi, S. (2012). Bayesian spatial multispecies modeling to assess pelagic fish stocks from acoustic and trawl survey data. ICES Journal of Marine Science, 69: 95-104. [Link]

  • Kuparinen, A., Mäntynimi, S., Hutchings, J. and Kuikka, S. (2012). Increasing biological realism of fisheries stock assessment: towards hierarchical Bayesian methods. Environmental Reviews, 20: 135-151.

  • Mäntyniemi, S., Romakkaniemi, A., Dannewitz, J., Palm, S., Pakarinen, T., Pulkkinen, H., Gårdmark, A. and Karlsson, O. (2012). Both predation and feeding opportunities may explain changes in survival of Baltic salmon post-smolts. ICES Journal of Marine Science, 69(9):1574-1579.[Link]

  • Röckmann, C., Ulrich, C., Dreyer, M., Bell, E., Borodzicz, E., Haapasaari, P., Hiis Hauge, K., Howell, D., Mäntyniemi, S., Miller, D., Tserpes, G., and Pastoors, M. 2012. The added value of participatory modelling in fisheries management – what has been learnt? Marine Policy, 36 (5): 1072-1085. [Link]

  • Uusitalo, L., Kuikka, S., Kauppila, P., Söderkultalahti, P. and Bäck, S. (2012). Assessing the roles of environmental factors in coastal fish production in the northern Baltic Sea: A Bayesian network application. Integrated Environmental Assessment and Management, 8: 445-455.[Link]

  • Vanhatalo, J., Veneranta, L. and Hudd, R. (2012). Species distribution modeling with Gaussian processes: A case study with the youngest stages of sea spawning whitefish (Coregonus lavaretus L. s.l.) larvae. Ecological Modelling, 228: 49-58.[Link]


  • Aps, R., Fetissov, M., Holmgren, N., Norrström, N. and Kuikka, S. (2011). Central Baltic Sea herring: effect of environmental trends and fishery management. In: Y. Villacampa, C.A. Brebbia (Eds.). Ecosystems and Sustainable Development VIII, WIT Press Southampton, Boston, pp. 69-80.

  • Aps, R., Fetissov, M., Holmgren, N., Norrström, N. and Kuikka, S. (2011). Fisheries management: from linear to collaborative science-policy interface. In: Management of natural resources, sustainable development and ecological hazards III. Eds. C.A. Brebbia, S.S. Zubir. WIT Press Southampton, Boston, pp. 3-14.

  • Glenn, H., Tingley, D., Maroño, S., Holm, D., Kell, L., Padda, G., Edvardsson, I., Asmundsson, J., Conides, A., Kapiris, K., Bezabih, M., Wattage, P. and Kuikka, S. 2011. Trust in the Fisheries Scientific Community. Marine Policy, 36: 54-72.

  • Helle, I., Lecklin, T., Jolma, A. and Kuikka S. (2011). Modeling the effectiveness of oil combating from an ecological perspective - A Bayesian network for the Gulf of Finland; the Baltic Sea. Journal of Hazardous Materials, 185(1):182-192.

  • Ihaksi, T., Kokkonen, T., Helle, I., Jolma, A., Lecklin, T. and Kuikka, S. (2011). Combining conservation value, vulnerability, and effectiveness of mitigation actions in spatial conservation decisions: an application to coastal oil spill combating. Environmental Management, 47(5): 802-813.

  • Jolma, A., Lehikoinen, A. and Helle, I. (2011). Coupling Bayesian networks and geospatial software for environmental risk assessment. (Invited paper). In Chan, F., Marinova, D. and Anderssen, R.S. (eds) MODSIM2011, 19th International Congress on Modelling and Simulation. Modelling and Simulation Society of Australia and New Zealand, December 2011, pp. 1881-1887. ISBN: 978-0-9872143-1-7.[Link]

  • Jylänki, P., Vanhatalo, J. and Vehtari, A. (2011). Gaussian Process Regression with a Student-t Likelihood. Journal of Machine Learning Research, 12: 3227-3257.[Link]

  • Kuikka, S., Haapasaari, P., Helle, I., Kulmala, S. and Mäntyniemi, S. (2011). Experiences in applying Bayesian integrative models in interdisciplinary modeling: the computational and human challenges. In Chan, F., Marinova, D. and Anderssen, R.S. (eds) MODSIM2011, 19th International Congress on Modelling and Simulation. Modelling and Simulation Society of Australia and New Zealand, December 2011, pp. 2135 - 2141. ISBN: 978-0-9872143-1-7.[Link]

  • Lecklin, T., Ryömä, R. and Kuikka, S. (2011). A Bayesian network for analyzing biological acute and long-term impacts of an oil spill in the Gulf of Finland. Marine Pollution Bulletin, 62: 2822-2835.

  • Levontin P., Kulmala S., Haapasaari P. and Kuikka S. (2011). Integration of biological, economic and sociological knowledge by Bayesian belief networks: the interdisciplinary evaluation of potential management plans for Baltic salmon. ICES Journal of Marine Science, 68: 632-638.

  • Lindén, A. and Mäntyniemi, S. (2011). Using negative binomial distribution to model overdispersion in ecological count data. Ecology, 92:1414-142

  • Pulkkinen, H., Mäntyniemi, S., Kuikka, S., and Levontin, P. (2011). More knowledge with the same amount of data: advantage of accounting for parameter correlations in hierarchical meta-analyses. Marine Ecology Progress Series, 443: 29-37.

  • Voss, R., Hinrichsen, H-H., Quaas, M.F., Schmidt, J.O. and Tahvonen, O. (2011). Temperature change and Baltic sprat: from observations to ecological–economic modelling. ICES Journal of Marine Science, 68: 1244–1256.


  • Haapasaari, P. and Karjalainen, T.P. (2010). Formalizing expert knowledge to compare alternative management plans: sociological perspective to the future management of Baltic salmon stocks. Marine Policy, 34: 477-486.

  • Kokkonen, T., Ihaksi, T., Jolma, A. and Kuikka, S. (2010). Dynamic mapping of nature values to support prioritization of coastal oil combating. Environmental Modelling & Software, 25: 248-257.

  • Tahvonen O. (2010). Age-structured optimization models in fisheries economics: a survey. In: Boucekkine, R., Hritonenko, N., and Yatsenko, Y. (eds.). Optimal Control of Age-structured Populations in Economy, Demography, and the Environment”. Routledge (Taylor & Francis, UK), ISBN 0 415 77651 1, 320 pp.

  • Tingley, D., Asmundsson, J., Borodzicz, E., Conides, A., Drakeford, B., Eethvarethsson, I.R., Holm, D., Kapiris, K., Kuikka, S. and Mortensen, B. (2010). Risk identification and perception in the fisheries sector: Comparisons between the Faroes, Greece, Iceland and UK. Marine Policy, 34: 1249-1260.[link]

  • Vähätalo, A. Aarnos, H. and Mäntyniemi, S. (2010). Biodegradability continuum and biodegradation kinetics of natural organic matter described by the beta distribution. Biogeochemistry, 100: 227-240.


  • Mäntyniemi, S., Kuikka, S., Rahikainen, M., Kell, L.T. and Kaitala, V. (2009). The value of Information in fisheries management: Nort Sea herring as an example. ICES Journal of Marine Science, 66: 2278-2283.

  • Klemola, E., Kuronen, J., Kalli, J., Arola, T., Hänninen, M., Lehikoinen, A., Kuikka, S., Kujala, P. and Tapaninen, U. (2009). A cross-disciplinary approach to minimising the risks of maritime transport in the Gulf of Finland. World Review of Intermodal Transportation Research, 2(4): 343–363.

  • Kuparinen, A., Kuikka, S. and Merilä J. (2009). Estimating fisheries-induced selection: traditional gear selectivity research meets fisheries-induced evolution. Evolutionary Applications, 2(2): 234-243.[Link]

  • Tahvonen O. (2009). Economics of harvesting age-structured fish populations. Journal of Environmental Economics and Management, 58(3): 281-299.

  • Tahvonen O. (2009). Optimal harvesting of age-structured fish populations. Marine Resource Economics, 24(2): 147-168.


  • Barton, D.N., Saloranta, T., Moe, S.J., Eggestad, H.O. and Kuikka, S. (2008). Bayesian Belief Networks as a Meta-Modelling Tool in Integrated River Basin Management; Pros and Cons in Evaluating Nutrient Abatement Decisions under Uncertainty in a Norwegian River Basin. Ecological Economics, 66(1): 91-104.

  • Haapasaari, P., (2008). Tieteidenvälisen tutkimuksen mahdollisuudet ja haasteet kalavarojen hallinnassa. Teoksessa: Ympäristösosiologian virrat ja verkostot. Toim. Karjalainen, T.P., Luoma, P. ja Reinikainen, K. Oulun yliopisto, Thule-instituutti.

  • Kulmala, S., Laukkanen, M. and Michielsens, C. (2008). Reconciling economic and biological modeling of migratory fish stocks: Optimal management of the Atlantic salmon fishery in the Baltic Sea. Ecological Economics, 64: 716-728.

  • Michielsens, C.G.J., McAllister, M.K., Kuikka, S., Mäntyniemi, S., Romakkaniemi, A., Pakarinen, T., Karlsson, L. and Uusitalo, L.. (2008). Combining multiple Bayesian data analyses in a sequential Bayesian framework for quantitative fisheries stock assessment. Can. J. Fish. Aquat. Sci, 65: 962-974.

  • Mikkonen, S., Rahikainen, M., Virtanen, J., Lehtonen, R., Kuikka, S. and Ahvonen, A. (2008). A linear mixed model with temporal covariance structures in modelling catch per unit effort of Baltic herring. ICES Journal of Marine Science, 65.[Link]

  • Tahvonen O. (2008): Harvesting age-structured populations as a biomass. Does it work? Natural Resource Modelling, 21: 525-550.


  • Haapasaari, P., Michielsens, C.G.J., Karjalainen, T. P., Reinikainen, K., and Kuikka, S. (2007). Management measures and fishers’ commitment towards sustainable exploitation: a case study of Atlantic salmon fisheries in the Baltic Sea. ICES Journal of Marine Science, 64: 825-833.

  • Kiljunen, M., Vanhatalo, M., Mäntyniemi, S., Peltonen, H. Kuikka, S., Kiviranta, H., Parmanne, R., Tuomisto, Jouni T., Vuorinen, Pekka J., Hallikainen, A., Verta, M.,Pönni, J., Jones, Roger I. and Karjalainen, J. (2007). Human dietary intake of organochlorines from Baltic herring: Implications of individual fish variability and fisheries management. Ambio, 36(2-3): 257-264.[Link]

  • Kulmala, S., Peltomäki, H., Lindroos, M., Söderkultalahti, P. and Kuikka, S. (2007). Individual Transferable Quotas in the Baltic Sea Herring Fishery: A Socio-bioeconomic Analysis. Fisheries Research, 84: 368 – 377.[Link]

  • Uusitalo, L. (2007). Advantages and challenges of Bayesian networks in environmental modelling. Ecological Modelling, 203(3-4): 312-318.[Link]


  • Kell, Laurie T., De Oliveira, José A.A., Punt, André E., McAllister, Murdoch K. and Kuikka, Sakari. (2006). Operational Management Procedures: An Introduction to the use of Evaluation Frameworks. In: Motos, Lorenzo and Wilson, Douglas Clyde (eds). The Knowledge Base for Fisheries Management. Elsevier. ISBN 0 444 52850 4. 454 pp.

  • Laine, A.O., Mattila, J., and Lehikoinen, A. (2006). First record of the brackish water dreissenid bivalve Mytilopsis leucophaeata in the northern Baltic Sea. Aquatic Invasions, 1(1): 38-41.[Link]

  • Michielsens, C.G.J., Mäntyniemi, S. and Vuorinen, P.J. (2006). Estimation of annual mortality rates caused by early mortality syndromes (EMS) and their impact on salmonid stock–recruit relationships. Can. J. Fish. Aquat. Sci., 63: 1968-1981.[Link]

  • Michielsens, C.G.J., McAllister, M.K., Kuikka, S., Pakarinen, T., Karlsson, L., Romakkaniemi, A., Perä, I. and Mäntyniemi, S. (2006). A Bayesian state-space mark-recapture model to estimate exploitation rates in mixed stock fisheries. Can. J. Fish. Aquat. Sci., 63: 321-334.[Link]


  • Mäntyniemi, S., Romakkaniemi, A. and Arjas, E. (2005). Bayesian removal estimation of a population size under unequal catchability. Canadian Journal of Fisheries and Aquatic Sciences, 62: 291-300.[Link]

  • Lappalainen, J., Malinen, T., Rahikainen, M., Vinni, M., Nyberg, K., Ruuhijärvi, J. and Salminen, M. (2005). Temperature dependent growth and yield of pikeperch, Sander lucioperca, in Finnish lakes. Fisheries Management and Ecology, 12: 27-35.[Link]

  • Pellikka, J., Kuikka, S., Lindén, H. and Varis, O. (2005). The role of game management in wildlife populations: uncertainty analysis of expert knowledge. European Journal of Wildlife Research, 51: 48-59. [Link]

  • Uusitalo, L., Kuikka, S., and Romakkaniemi A. (2005). Estimation of Atlantic salmon smolt carrying capacity of rivers using expert knowledge. ICES Journal of Marine Science, 62(4): 708-722.[Link]

  • Uusitalo, L., Vehkalahti, K., Kuikka, S. and Söderkultalahti P. (2005). Studying species associations from commercial catch data: a Baltic Sea application. Fisheries Research, 72(2-3): 301-310.[Link]


  • Rahikainen, M., Peltonen, H. and Pönni, J. (2004). Unaccounted mortality in northern Baltic Sea herring fishery - magnitude and effects on estimates of stock dynamics. Fisheries Research, 67: 111-127.[Link]

  • Rahikainen, M. and Stephenson, R. L. (2004). Consequences of growth variation in northern Baltic herring for assessment and management. ICES Journal of Marine Scence, 61: 338-350.[Link]


  • Rahikainen, M., Kuikka, S., and Parmanne, R. (2003). Modelling the effect of ecosystem change on spawning per recruit of Baltic herring. ICES Journal of Marine Scence, 60: 94-109.[Link]


  • Mäntyniemi, S. and Romakkaniemi, A. (2002). Bayesian mark-recapture estimation with an application to a salmonid smolt population. Canadian Journal of Fisheries and Aquatic Sciences, 59: 1748-1758.[Link]

  • Rahikainen, M. and Kuikka, S. (2002). Fleet dynamics of herring trawlers - trends in gear size and implications for interpretation of CPUE. Canadian Journal of Fisheries and Aquatic Sciences, 59:531-541[Link]

Other publications in English

  • Haapasaari, P. (2015). GOHERR - Integrated governance of Baltic herring and salmon stocks involving stakeholders. BONUS in Brief. BONUS for the Baltic Sea Science - Network of Funding Agencies Newsletter. May 2015.

  • Cooper, S. , Kuikka, S. and Haapasaari, P. (2015). Feature article - Hazard awareness: managing oil spill risk in the Baltic Sea, ICES CIEM Newsletter. February 2015. 13.2.2015. [Link]

  • Haapasaari, P., Dahlbo, K., Aps, R., Brunila, O-P., Fransas, A., Goerlandt, F., Hänninen, M., Jönsson, A., Laurila-Pant, M., Lehikoinen, A., Mazaheri, A., Montewka, J., Nieminen, E., Nygren, P., Salokorpi, M., Tabri, K., and Viertola, J. (2014). Minimizing risks of maritime oil transport by holistic safety strategies (MIMIC): Final report. The Central Baltic INTERREG IV A Programme 2007-2013. Edited by P. Haapasaari and K. Dahlbo. Kotka Maritime Research Association, Kotka. [Link]

  • Stergiou, K.I., Karachle, P.K., Apostolidis, C., Giannakak,i A., Despoti, S., Tsikliras, A., Mäntyniemi, S. and Kuikka S. (in press). ECOKNOWS: using prior knowledge for fisheries management. – 10th Panhellenic Symposium of Oceanography & Fisheries .

  • Helle, I. & Kuikka, S. (2013). The challenge of keeping the Gulf of Finland clean from oil – what should we do? Baltic Rim Economies 1/2013: 36. [Link]

  • Kulmala, S., Haapasaari, P., Karjalainen, T.P., Kuikka, S., Pakarinen, T., Parkkila, K., Romakkaniemi, A., and Vuorinen, P. (2013). Ecosystem services provided by Baltic salmon: a regional perspective to the socio-economic benefits associated with a keystone species. In Kettunen et al. (eds): Socio-economic importance of ecosystem services in the Nordic Countries: Synthesis in the context of The Economics of Ecosystems and Biodiversity (TEEB). Pages 266-276. [Link]

  • Hyytiäinen, K., Ahlvik, L., Ahtiainen, H., Artell, J., Dahlbo, K., Ekholm, P., Fleming-Lehtinen, V., Heiskanen, A.-S., Helle, I., Inkala, A., Juntunen, T., Kuikka, S., Kulmala, S., Lankia, T., Lehtiniemi, M., Lehtoranta, J. Lignell, R., Luoma, E., Maar, M., Pitkänen, H. & Tuomi, L. (2012): Itämeren suojelun taloudelliset hyödyt ja kustannukset. In: Hyytiäinen K. & Ollikainen M. (eds.), Taloudellinen näkökulma Itämeren suojeluun (Economic Aspects of Baltic Sea Protection), pp. 11-100. Ympäristöministeriön raportteja 22/2012, Helsinki. In Finnish, abstract in English.

  • Helle, I., Vanhatalo, J., Rahikainen, M., Mäntyniemi, S. & Kuikka, S. (2012). Integrated Bayesian risk analysis of ecosystem management in the Gulf of Finland, the Baltic Sea - How to do it? ICES CM 2012/I:04, 17-21 September 2012, Bergen, Norway.

  • Pastoors, M.A., Ulrich, C., Wilson, D., Röckmann, C., Goldsborough, D., Degnbol, D., Berner, L., Johnson, T., Haapasaari, P., Dreyer, M., Bell, E., Borodzicz, E., Hauge, K. H., Howell, D., Mäntyniemi, S., Miller, D., Aps, R., Tserpes, G., Kuikka, S., and Casey, J. 2012. JAKFISH Policy Brief: coping with uncertainty, complexity and ambiguity in fisheries management through participatory knowledge development. ICES CM 2012/L:16. ICES Annual Science Conference 2012, Bergen. [Link]

  • Romakkaniemi, A., Haapasaari, P., Karjalainen T., ja Erkinaro J. 2012. Lohikantojen ja kalastuksen kansalliset arviointi- ja säätelyjärjestelmät. RKTL:n työraportteja 28/2012. Riista- ja kalatalouden tutkimuslaitos, Helsinki. [Link]

  • Lehikoinen, A., Luoma, E., Hänninen, M., Storgård, J. & Kuikka, S. 2012. Probabilistic Risk Assessment and Decision Support Tools for the Evaluation of Oil Transport in the Gulf of Finland, North-Eastern Baltic Sea. 6th International Congress on Environmental Modelling and Software.[Link]

  • Gårdmark, A., Bergenius, M, Mäntyniemi, S., & Kuikka, S. 2012. Låt kunskap styra beräkningar av mänden fisk i havet. Fisketristidskrift för Finland, 2: 16-18.[Link]

  • Catalán, I., Cerviño, S., Ruiz, J., Macías, D., Rincón, M., Morales, B., Castro, J. Mäntyniemi, S., Klemola, E., Romakkaniemi, A., Mumford, J., Kuikka, S. 2012. El valor de la experiencia en la evaluacion de recursos pesqueros: una aproximacion estadistica. Industrias Pesqueras, 2037: 6- 10.[Link]

  • Ruiz, J. & Kuikka, S. 2012. Tangled ecosystem models: a temptation of siren songs and silences. Scientia Marina, 76(1): 191-194.[Link]

  • Rahikainen, M., Mäntyniemi, S., Helle, I. & Sakari Kuikka. Herring as a link among pressures in multidimensional ecosystem management. ICES CM 2011/R:19.

  • Vanhatalo, J., Juntunen, T., Peltonen, H. & Mäntyniemi, S. Assessing pelagic fish stocks from acoustic and trawl survey data in the Baltic Sea, ICES CM 2011/M:05

  • Vanhatalo, J., Veneranta, L. & Hudd, R. Additive Gaussian process model to predict the spatial presence of the youngest stages of sea spawning whitefish (Coregonus lavaretus L. s.l.) larvae, ICES CM 2011/G:02

  • Haapasaari, P., Kulmala, S. & Kuikka, S. Converging biology, economics and social science in fisheries research –lessons learned ICES CM 2011/R:13

  • Rahikainen, M., Lehikoinen, A. , Luoma, E. , Haapasaari, P. , Levontin, P., Kulmala, S., Kuronen, J., Hänninen, M., Mäntyniemi, S., Klemola, E. & Kuikka, S. 2011. Bayesian network – a flexible tool to integrate multidisciplinary knowledge. Poster presented in HENVI Science Days on Interdisciplinary Environmental Research and Teaching on April 7th - 8th 2011, Helsinki.[Link]

  • Goldsborough, D., Berner, L., Haapasaari, P., Johnson, T., Wilson, D., and Pastoors, M. 2011. A social network analysis of a marine management science-policy community for six case studies. JAKFISH (Judgment and Knowledge in Fisheries Involving Stakeholders, EU 7th framework programme, grant agreement 212969). Deliverable 5.1.

  • Levontin, P., Kulmala, S., Haapasaari, P., and Kuikka, S. 2010. Integration of biological, economic and sociological knowledge by Bayesian belief networks: the interdisciplinary evaluation of potential Baltic salmon management plan. Australian Agricultural & Resource Economics Society (AARES) Annual Conference, 10.-12.Feb 2010, Adelaide, Australia. [Link]

  • Luoma, Emilia 2010. Suomen öljyntorjunta-alusten keruutehokkuuden mallintaminen Suomenlahdella. Master's thesis, University of Turku. (in Finnish). [Link]

  • Lehikoinen, A. 2010. SAFGOF a cross-disciplinary modelling approach to minimizing the ecological risks of maritime oil transportation in the Gulf of Finland. In Proceeding of 5th International Conference on Collision and Grounding of Ships, pp 244-249. [Link]

  • Kuikka, S. 2010. Kalakannat - ihmisen ja luonnon noppapeli. In: Bäck, S., Ollikainen, M., Bonsdorff, E., Eriksson, A., Hallanaro, E-L., Kuikka, S., Viitasalo, M. & Walls, M. (eds.), Itämeren tulevaisuus, pp. 134-149. Gaudeamus University Press, Helsinki. In Finnish.

  • Helle, I. & Kuikka, S. 2010. Itämeren öljykuljetusten riskipeli. In: Bäck, S., Ollikainen, M., Bonsdorff, E., Eriksson, A., Hallanaro, E-L., Kuikka, S., Viitasalo, M. & Walls, M. (eds.), Itämeren tulevaisuus, pp. 190-205. Gaudeamus University Press, Helsinki. In Finnish.

  • Karjalainen, M., Hänninen, M., Kuronen, J. & Lehikoinen, A. 2010. Greater traffic - damaged environment? Baltic Transport Journal 2/2010: 22-23.[Link]

  • Kuikka, S., Helle, I. & Ihaksi, T. 2009. First Things First. ICES Insight 46/September 2009: 18-23.

  • Kuikka, S. 2009. Interaction between ecosystems and human society. In: Rintala, J-M. & Myrberg, K. (Eds). The Gulf of Finland. Finnish-Russian-Estonian cooperation to protect the marine environment. ISBN 978-952-11-3597-2. Ministry of the Environment of Finland. 119 pp.

  • Haapasaari, P., Mäntyniemi, S., and Kuikka, S. 2009. Participatory modeling to enhance understanding and consensus within fisheries management: the Baltic herring case. ICES Annual Science Conference, Berlin. CM 2009/O:13

  • Mäntyniemi, S. Haapasaari, P. and Kuikka, S. 2009. Incorporating stakeholders' knowledge to stock assessment: how? ICES Annual Science Conference, Berlin. CM 2009/O:12

  • Levontin, P., Kulmala, S., Haapasaari, P. & Parkkila, K. 2009. Synthesising biological, economic and sociological knowledge using Bayesian Belief Networks to support broadly based fisheries policy: the case of devising a new Baltic salmon management plan. ICES Annual Science Conference, Berlin, 2009. CM 2009/O:14.

  • Pakarinen, T., Kulmala, S., Parkkila, K., Haapasaari, P. etc.Data Analysis to support the development of a Baltic Sea salmon action plan. SI2.491891, FISH/2007/03 – Lot 6. Finnish Game and Fisheries Research Institute, January 2009 [Link]

  • Kuronen, J., Helminen, R., Lehikoinen, A., & Tapaninen, U. 2008. Maritime transportation in the Gulf of Finland in 2007 and in 2015. Publications from the Centre for Maritime Studies, University of Turku. A45. 110 pp.[Link]

  • Lindén, E., Lehikoinen, A., Kotta, J., Aps, R., Pitkänen, H., Räike, A., Korpinen, P. & Kuikka, S. 2008: EVAGULF - Protection of the aquatic communities in the Gulf of Finland: risk-based policymaking. Ocean observations, ecosystem-based management & forecasting. US/EU-Baltic 2008 international symposium, Tallinn, Estonia. [Link]

  • Lindén, E., Lehikoinen, A., Kuikka, S., Aps, R., Kotta, J., Martin, G., Saat, T,. Pitkänen, H., Räike, A., Korpinen, P., Stipa, T., Kaitala, S. & Jolma, A. 2007: EVAGULF - Protection of aquatic communities in the Gulf of Finland: risk-based policymaking. ICES CM 2007/C:07.[Link]

  • Michielsens, C.G.J., Kuikka, S., Haapasaari, P., Kulmala, S., Romakkaniemi, A. & Erkinaro, J. 2005. Interdisciplinary modeling through probabilistic networks: impact of fishermen's commitment on the management of wild Baltic salmon stocks. Proceedings of the ICES Annual Science Conference, Aberdeen. ICES CM 2005/V:27.[Link]

  • Michielsens, C.G.J., Kuikka, S., Haapasaari, P., Kulmala, S., Romakkaniemi, A. & Erkinaro, J. 2005. Interdisciplinary probabilistic network to examine the possibility to restore potential Baltic salmon rivers. Proceedings of the ICES Annual Science Conference 2005, Aberdeen. ICES CM 2005/W:05.[Link]

  • Haapasaari, P, Karjalainen, T.P., Reinikainen, K. & Michielsens C. 2005. Commitment to Salmon: using Bayesian modeling to create a sustainable fisheries management tool based on commitment of fishermen. Proceedings of the ICES Annual Science Conference, Aberdeen. ICES CM 2005/V:07. [Link]