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Publications

The most recently published scientific articles from the Department of Biology. The overview shows the Department's publications with the latest at the top:

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Hansen, K. A., Miltersen, P. B. & Vinay, V. (2003). Circuits on Cylinders. In Fundamentals of Computation Theory (pp. 171-182). Springer. https://doi.org/10.1007/978-3-540-45077-1_17
Hansen, K. M. (2003). Activity-Centred Tool Integration: Using Type-Based Publish/Subscribe for Peer-to-Peer Tool Integration. In A. Schürr & H. Dörr (Eds.), Proceedings of TIS 2003 Workshop on Tool Integration in System Development (pp. 11-16). Association for Computing Machinery.
Hansen, K. M. (2001). Fluid Interfaces: Supporting Specific, General, and Minimal Interaction. In O. W. Bertelsen (Ed.), Proceedings of The First Danish Human-Computer Interaction Research Symposium (pp. 25-26). Aarhus University.
Hansen, K. M. (2004). Thoth - A Publish/Subscribe Architecture for Peer-to-Peer Tool Integration. International Journal on Software Tools for Technology Transfer, 6(3), 219-230. https://doi.org/10.1007/s10009-004-0156-7
Hansen, K. M. & Christensen, H. B. (2004). Component Reengineering Workshops: A Low-Cost Approach for Assessing Specific Reengineering Costs Across Product Lines. In Proceedings of the 8th European Conference on Software Maintenance and Reengineering 2004 (pp. 154-162). IEEE Computer Society Press. https://doi.org/10.1109/CSMR.2004.1281416
Hansen, K. M., MacIntyre, B., Mynatt, E. D., Tullio, J. & Voida, S. (2001). Hypermedia in the Kimura System: Using Spacial, Temporal and Navigational Relationships to Support Multitasking and Background Awareness. In Proceedings of the twelfth ACM Conference on Hypertext and Hypermedia (Vol. Posters). ACM Press New York, NY, USA.
Hansen, K. M. & Ratzer, A. V. (2002). Tool Support for Collaborative Teaching and Learning of Object-Oriented Modelling. In Proceedings of the 7th annual conference on Innovation and technology in computer science education (pp. 146-150). Association for Computing Machinery. https://doi.org/10.1145/544414.544458
Hansen, T. R. (2004). Socio-Technical Experiments - A New Approach on the Design Process. Electronic Colloquium on Computational Complexity, (CfPC 2004-PP-57).
Hein, J., Pedersen, C. N. S. & Jensen, J. L. (2002). Recursions for Statistical Multiple Alignment. Proceedings of the National Academy of Sciences (PNAS), 100(25), 14960-14965.
Iversen, J. & Mosses, P. D. (Ed.) (2002). Type Inference for the New Action Notation. Paper presented at International Workshop on Action Semantics (AS 2002), København, Denmark.
Iversen, J. & Mosses, P. D. (2004). Constructive Action Semantics for Core ML. BRICS Report Series, (RS-04-37).
Iversen, O. S., Kanstrup, A. M. & Petersen, M. G. (2004). A Visit to the 'New Utopia': Revitalizing Democracy, Emancipation and Quality in Co-Operative Design. In ACM International Conference Proceeding Series: Proceedings of the third Nordic conference on Human-computer interaction (Vol. 82, pp. 171-179). Association for Computing Machinery. https://doi.org/10.1145/1028014.1028040
Jagota, A., Lyngsø, R. B., Pedersen, C. N. S., Gascuel, O. (Ed.) & Moret, B. M. E. (Ed.) (2001). Comparing Hidden Markov Model and a Stochastic Context-Free Grammer. In Proceedings of the First International Workshop on Algorithms in Bioinformatics (2149 of Lecture Notes in Computer Science ed., Vol. Volume 2149/2001, pp. 69-94). Springer.
Jensen, M. & Søgaard, M. (2004). Refocusing the Contextual Turn: The Forgotten Construction of Meaning at the Interface. In Ikke angivet (pp. 185-188). Association for Computing Machinery.
Jurdzinski, M., Nielsen, M. & Srba, J. (2003). Undecidability of Domino Games and Hhp-Bisimilarity. Information and Computation, 184(2), 343-368. https://doi.org/10.1016/S0890-5401(03)00064-6
Jørgensen, J. B. & Moldt, D. (Ed.) (2004). CPN Models as Enhancements to a Traditional Software Specification for an Elevator Controller. In Ikke angivet (PB-571 of Daimi Reports ed., pp. 99-116). Aarhus University.
Jørgensen, J. B., Aalst, W. M. P. V. D. (Ed.) & Best, E. (Ed.) (2003). Coloured Petri Nets in Development of a Pervasive Health Care System. In Ikke angivet (2679 of Lecture Notes in Computer Science ed., Vol. 2679/2003, pp. 256-275). Springer.
Jørgensen, J. B. & Jensen, K. (Ed.) (2002). Coloured Petri Nets in UML-Based Software Development: Designing Middleware for Pervasive Healthcare. In Ikke angivet (DAIMI PB-560 ed., pp. 61-80). Department of Computer Science, University of Aarhus.
Jørgensen, J. B., Bossen, C., Benyon, D. (Ed.), Moody, P. (Ed.), Gruen, D. (Ed.) & McAra-McWilliam, I. (Ed.) (2004). Context-descriptive Prototypes and Their Application to Medicine Administration. In Ikke angivet (pp. 297-306). Society for Industrial and Applied Mathematics.
Jørgensen, J. B., Bossen, C., Giese, H. (Ed.) & Kruger, I. (Ed.) (2004). Executable Use Cases as Links Between Application Domain Requirements and Machine Specifications. In Proceedings of the 26th International Conference on Software Engineering: 3rd Workshop on Scenarios and State Machines: Models, Algorithms, and Tools IEEE.
Jørgensen, J. B., Bossen, C. & Wieringa, R. (Ed.) (2003). Requirements Engineering for a Pervasive Health Care System. In Ikke angivet (pp. 55-64). IEEE.
Jørgensen, J. B., Christensen, S., Jezequel, J.-M. (Ed.), Hussmann, H. (Ed.) & Cook, S. (Ed.) (2002). Executable Design Models for a Pervasive Healthcare Middleware System. In Lecture Notes In Computer Science: 5th International Conference on The Unified Modeling Language (Vol. 2460, pp. 140-149). Springer.
Jørgensen, J. B., Christensen, S., Desel, J. (Ed.), Reisig, W. (Ed.) & Rozenberg, G. (Ed.) (2004). Teaching Coloured Petri Nets: Examples of Courses and Lessons Learned. In Proceedings of Advances Course on Petri Nets (Eichstatt) (3098 i Lecture Notes in Computer Science ed., pp. 402-412). Springer.
Jørgensen, J. B., Christensen, S., Tuovinen, A., Xu, J., Steffen, B. (Ed.) & Margaria, T. (Ed.) (2004). Estimation of Memory Usage of Mobile Phone Software Using UML and Coloured Petri Nets. Paper presented at 1st International Symposium on Leveraging Applications of Formal Methods (ISOLA 2004), Paphos, Cyprus.
Kaptelinin, V., Nardi, B., Bødker, S., Carroll, J., Hollan, J., Hutchins, E. & Winograd, T. (2003). Post-cognitivist HCI: second-wave theories. In G. Cockton & P. Korhonen (Eds.), Ikke angivet (pp. 692-693). Association for Computing Machinery. https://doi.org/10.1145/765891.765933
Kejser, T. & Grønbæk, K. (2003). The Gaia Framework: Version Support In Web Based Open Hypermedia. In P. Isaías & N. Karmakar (Eds.), Proceedings of the IADIS International Conference on WWW/Internet 2003 (pp. 314-325). International Association for Development, IADIS.
Kirchner, H. & Mosses, P. D. (2001). Algebraic Specifications, Higher-order Types and Set-theoretic Models. Journal of Logic and Computation, 11(3), 453-481.
Klarlund, N. & Møller, A. (2001). MONA Version 1.4 User Manual. BRICS Notes Series, (NS-01-1).
Klarlund, N., Møller, A. & Schwartzbach, M. I. (2002). MONA Implementation Secrets. International Journal of Foundations of Computer Science, 13(4), 571-586. https://doi.org/10.1142/S012905410200128X
Klarlund, N., Møller, A. & Schwartzbach, M. I. (2002). The DSD Schema Language. Automated Software Engineering, 9(3), 285-319. https://doi.org/10.1023/A:1016376608070
Kohlenbach, U. & Lambov, B. (2003). Bounds on Iterations of Asymptotically Quasi-Nonexpansive Mappings. BRICS Report Series, (RS-03-51).
Kohlenbach, U., Lambov, B., Falset, J. (Ed.), Fulster, E. (Ed.) & Sims, B. (Ed.) (2004). Bounds on Iterations of Asymptotically Quasi-non-expansive Mappings. In International Conference on Fixed Point Theory and Applications, Valencia 2003 (pp. 143-172). Yokohama Publishers.
Korhonen, I. & Bardram, J. E. (2004). Introduction to this special issue on Pervasive Healthcare. I E E E Transactions on Information Technology in Biomedicine, 8(3), 229-234.
Krieg-Brückner, B., Mosses, P. D. & Mosses, P. D. (Ed.) (2004). Casl Summary. In Casl Reference Manual, The Complete Documentation of the Common Algebraic Specification Language (2960 i Lecture Notes in Computer Science ed., pp. 1-69). Springer.
Krieg-Brückner, B., Mosses, P. D. & Mosses, P. D. (Ed.) (2004). Casl Syntax. In Casl Reference Manual, The Complete Documentation of the Common Algebraic Specification Language (2960 i Lecture Notes in Computer Science ed., pp. 71-112). Springer.
Krink, T., van Kooten Niekerk, K. (Ed.) & Buhl, H. (Ed.) (2004). Complexity and the Computing Age: Can Computers Really Help to Understand Complex Phenomena in Nature? In The Significance of Complexity (pp. 47-73). Ashgate publishing.
Krink, T., Filipic, B., Fogel, G. B. & Thomsen, R. (2004). Noisy Optimization Problems - A Particular Challenge for Differential Evolution? In Ikke angivet (pp. 332-339). IEEE Press.
Krink, T., Løvbjerg, M., Guervós, J. J. M. (Ed.), Adamidis, P. (Ed.), Beyer, H.-G. (Ed.), Fernández-Villacañas Martin, J.-L. (Ed.) & Schwefel, H.-P. (Ed.) (2002). The LifeCycle model: Combining Particle Swarm Optimisation, Genetic Algorithms and HillClimbers. In Lecture Notes in Computer Science: Parallel Problem Solving from Nature --- PPSN VII (Vol. 2439, pp. 621-630). Springer.
Krink, T. & Paterlini, S. (2006). Differential Evolution and Particle Swarm Optimization for Partitional Clustering. Computational Statistics & Data Analysis, 50/5(446), 27.
Krink, T. & Thomsen, R. (2001). Self-Organized Criticality and Mass Extinction in Evolutionary Algorithms. In Proceedings of the Third Congress on Evolutionary Computation (CEC 2001).: Vol. 2 (Vol. 2, pp. 1155-1161). IEEE.
Krink, T., Ursem, R. K., Filipic, B., Spector, L. (Ed.), Goodman, E. D. (Ed.), Wu, A. (Ed.), Langdon, W. B. (Ed.), Voigt, H. (Ed.), Gen, M. (Ed.), Sen, S. (Ed.), Dorio, M. (Ed.), Pezeshk, S. (Ed.), Garzon, M. H. (Ed.) & Burke, E. (Ed.) (2001). Evolutionary Algorithms in Control Optimization: The Greenhouse Problem. In GECCO 2001: Proceedings of the Genetic and Evolutionary Computation Conference (pp. 440-447). Morgan Kaufmann.
Krink, T., Vesterstrøm, J. S., Riget, J., Fogel, D. B. (Ed.), Yao, X. (Ed.), Greenwood, G. (Ed.), Iba, H. (Ed.), Marrow, P. (Ed.) & Shackleton, M. (Ed.) (2002). Particle Swarm Optimisation with Spatial Particle Extension. In Proceedings of the Evolutionary Computation on 2002. CEC '02.: Proceedings of the 2002 Congress (Vol. 02, pp. 1474-1479). IEEE.
Kristensen, J. F., Eriksen, M. A., Iversen, O. S., Kanstrup, A. M., Nielsen, C. & Petersen, M. G. (2003). Young People In Old Cars - Challenges For Cooperative Design. Paper presented at Information systems research seminar in Scandinavia (IRIS 26) 9-12 August 2003, Haikko Manor, Finland.
Kristensen, L. M. (2004). Using Coloured Petri Nets in the Development of Protocols for Ad-Hoc Networking. In Proceedings of 3rd International Workshop on Integration and Specification Techniques for Applications in Engineering (pp. 12-13)

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Fashing, P. J., Nguyen, N., Demissew, S., Gizaw, A., Atickem, A., Mekonnen, A., Nurmi, N. O., Kerby, J. T. & Stenseth, N. C. (2022). Ecology, evolution, and conservation of Ethiopia’s biodiversity. Proceedings of the National Academy of Sciences (PNAS), 119(50), Article e2206635119. https://doi.org/10.1073/pnas.2206635119
Colon, C. P., Botton, M. L., Funch, P., Hoffgaard, E. E., Mandeep, K. & Mansfield, K. (2022). Ecology of Juvenile American Horseshoe Crabs (Limulus polyphemus) at Plumb Beach, Jamaica Bay, New York. In International Horseshoe Crab Conservation and Research Efforts: 2007- 2020: Conservation of Horseshoe Crabs Species Globally (pp. 669-690). Springer. https://doi.org/10.1007/978-3-030-82315-3_40
Aguilar, L., Pérez, L. M., Gallegos, Á., Fores, E., Arias, C. A., Bosch, C., Verdum, M., Jove, P., de Pablo, J. & Morató, J. (2022). Effect of aeration on nitrogen removal-associated microbial community in an innovative vertical cork-based constructed wetland for winery wastewater treatment. Ecological Engineering, 185, Article 106781. https://doi.org/10.1016/j.ecoleng.2022.106781
Baden, S., Fredriksen, S., Christie, H., Eriander, L., Gustafsson, C., Holmer, M., Olesen, B., Thormar, J. & Boström, C. (2022). Effects of depth and overgrowth of ephemeral macroalgae on a remote subtidal NE Atlantic eelgrass (Zostera marina) community. Marine Pollution Bulletin, 177, Article 113497. https://doi.org/10.1016/j.marpolbul.2022.113497
Vera-Puerto, I., Campal, J., Martínez, S., Cortés-Rico, L., Coy, H., Tan, S., Arias, C. A., Baquero-Rodríguez, G. & Rosso, D. (2022). Effects of Environmental Conditions and Bed Configuration on Oxygen Transfer Efficiency in Aerated Constructed Wetlands. Water (Switzerland), 14(20), Article 3284. https://doi.org/10.3390/w14203284
Zuquim, G., Benchimol, M., Tonon, R., Peres, C. A. & Storck-Tonon, D. (2022). Effects of forest degradation on Amazonian ferns in a land-bridge island system as revealed by non-specialist inventories. Ecological Solutions and Evidence, 3(1), Article e12123. https://doi.org/10.1002/2688-8319.12123
Yin, M., Liu, L., Wu, Y., Sheng, W., Ma, X., Du, N., Zhu, P., Wang, C., Cui, Z., Brix, H., Eller, F. & Guo, W. (2022). Effects of litter species and genetic diversity on plant litter decomposition in coastal wetland. Ecological Indicators, 144, Article 109439. https://doi.org/10.1016/j.ecolind.2022.109439
Hylén, A., Bonaglia, S., Robertson, E., Marzocchi, U., Kononets, M. & Hall, P. O. J. (2022). Enhanced benthic nitrous oxide and ammonium production after natural oxygenation of long-term anoxic sediments. Limnology and Oceanography, 67(2), 419-433. https://doi.org/10.1002/lno.12001
Venkataraman, V. V., Miller, C., Foxfoot, I., Lin, B., Petrie, Z. L., Simberloff, R. A., Bernardo, O., Redon, N., Hohn, T. I., Kerby, J. T., Nguyen, N. & Fashing, P. J. (2022). Epizoochorous seed dispersal by an Afroalpine savanna primate. Biotropica, 54(2), 358-369. https://doi.org/10.1111/btp.13057
Panyadee, P., Meunrew, J., Balslev, H. & Inta, A. (2022). Ethnobotany and Ecosystem Services in a Tidal Forest in Thailand. Sustainability, 14(10), Article 6322. https://doi.org/10.3390/su14106322
Hersh, T. A., Gero, S., Rendell, L., Cantor, M., Weilgart, L., Amano, M., Dawson, S. M., Slooten, E., Johnson, C. M., Kerr, I., Payne, R., Rogan, A., Antunes, R., Andrews, O., Ferguson, E. L., Hom-Weaver, C. A., Norris, T. F., Barkley, Y. M., Merkens, K. P. ... Whitehead, H. (2022). Evidence from sperm whale clans of symbolic marking in non-human cultures. Proceedings of the National Academy of Sciences (PNAS), 119(37), Article e2201692119. https://doi.org/10.1073/pnas.2201692119
Milsom, W. K., Kinkead, R., Hedrick, M. S., Gilmour, K., Perry, S., Gargaglioni, L. & Wang, T. (2022). Evolution of vertebrate respiratory central rhythm generators. Respiratory Physiology and Neurobiology, 295, Article 103781. https://doi.org/10.1016/j.resp.2021.103781
Méndez-Quintas, E., Santonja, M., Pérez-González, A., Díaz-Rodríguez, M. & Domínguez, A. S. (2022). Exploring the formation processes on open-air palaeolithic sites: A late Middle Pleistocene Acheulean assemblage at Arbo site (Miño River basin, Spain). Journal of Archaeological Science: Reports, 43, Article 103453. https://doi.org/10.1016/j.jasrep.2022.103453
Findlay, C. R., Hastie, G. D., Farcas, A., Merchant, N. D., Risch, D. & Wilson, B. (2022). Exposure of individual harbour seals (Phoca vitulina) and waters surrounding protected habitats to acoustic deterrent noise from aquaculture. Aquatic Conservation: Marine and Freshwater Ecosystems, 32(5), 766-780. https://doi.org/10.1002/aqc.3800
Izadi, S., Aguilar de Soto, N., Constantine, R. & Johnson, M. (2022). Feeding tactics of resident Bryde's whales in New Zealand. Marine Mammal Science, 38(3), 1104-1117. https://doi.org/10.1111/mms.12918
Christiansen, F., Uhart, M. M., Bejder, L., Clapham, P., Ivashchenko, Y., Tormosov, D., Lewin, N. & Sironi, M. (2022). Fetal growth, birth size and energetic cost of gestation in southern right whales. Journal of Physiology, 600(9), 2245-2266. https://doi.org/10.1113/JP282351
Thomsen, E. M., Sonne, A., Bertelsen, M., Vermeulen, E., Ganswindt, A., Wang, T. & Ochala, J. (2022). Fine-regulation of myosin relaxed states in vertebrate muscle. The FASEB Journal, 36(S1). https://doi.org/10.1096/fasebj.2022.36.S1.R4611
Menail, H. A., Cormier, S. B., Ben Youssef, M., Jørgensen, L. B., Vickruck, J. L., Morin, P., Boudreau, L. H. & Pichaud, N. (2022). Flexible Thermal Sensitivity of Mitochondrial Oxygen Consumption and Substrate Oxidation in Flying Insect Species. Frontiers in Physiology, 13, Article 897174. https://doi.org/10.3389/fphys.2022.897174
Mikkelsen, P. S. (2022). Gael Hamke Bugt - Young Sund. (1 ed.) Xsirius Books.
Ivy, C. M., Wearing, O. H., Natarajan, C., Schweizer, R. M., Gutiérrez-Pinto, N., Velotta, J. P., Campbell-Staton, S. C., Petersen, E. E., Fago, A., Cheviron, Z. A., Storz, J. F. & Scott, G. R. (2022). Genetic variation in haemoglobin is associated with evolved changes in breathing in high-altitude deer mice. Journal of Experimental Biology, 225(2), Article jeb243595. https://doi.org/10.1242/jeb.243595
Liu, S., Tengstedt, A. N. B., Jacobsen, M. W., Pujolar, J. M., Jónsson, B., Lobón-Cervià, J., Bernatchez, L. & Hansen, M. M. (2022). Genome-wide methylation in the panmictic European eel (Anguilla anguilla). Molecular Ecology, 31(16), 4286-4306. https://doi.org/10.1111/mec.16586
Lembrechts, J. J., van den Hoogen, J., Aalto, J., Ashcroft, M. B., De Frenne, P., Kemppinen, J., Kopecký, M., Luoto, M., Maclean, I. M. D., Crowther, T. W., Bailey, J. J., Haesen, S., Klinges, D. H., Niittynen, P., Scheffers, B. R., Van Meerbeek, K., Aartsma, P., Abdalaze, O., Abedi, M. ... Lenoir, J. (2022). Global maps of soil temperature. Global change biology, 28(9), 3110-3144. https://doi.org/10.1111/gcb.16060
Tietje, M., Antonelli, A., Baker, W. J., Govaerts, R., Smith, S. A. & Eiserhardt, W. L. (2022). Global variation in diversification rate and species richness are unlinked in plants. Proceedings of the National Academy of Sciences (PNAS), 119(27), Article e2120662119. https://doi.org/10.1073/pnas.2120662119
Vuorinen, K. E. M., Austrheim, G., Tremblay, J. P., Myers-Smith, I. H., Hortman, H. I., Frank, P., Barrio, I. C., Dalerum, F., Björkman, M. P., Björk, R. G., Ehrich, D., Sokolov, A., Sokolova, N., Ropars, P., Boudreau, S., Normand, S., Prendin, A. L., Schmidt, N. M., Pacheco-Solana, A. ... Speed, J. D. M. (2022). Growth rings show limited evidence for ungulates' potential to suppress shrubs across the Arctic. Environmental Research Letters, 17(3), Article 034013. https://doi.org/10.1088/1748-9326/ac5207
Guo, W. Y., Serra-Diaz, J. M., Schrodt, F., Eiserhardt, W. L., Maitner, B. S., Merow, C., Violle, C., Anand, M., Belluau, M., Bruun, H. H., Byun, C., Catford, J. A., Cerabolini, B. E. L., Chacón-Madrigal, E., Ciccarelli, D., Cornelissen, J. H. C., Dang-Le, A. T., de Frutos, A., Dias, A. S. ... Svenning, J. C. (2022). High exposure of global tree diversity to human pressure. Proceedings of the National Academy of Sciences (PNAS), 119(25), Article e2026733119. https://doi.org/10.1073/pnas.2026733119
Vickaryous, M., Williams, C., Willan, G., Kirby, A., Herrel, A., Kever, L., Moazen, M., Marghoub, A., Rai, S., Abzhanov, A. & Evans, S. (2022). Histological Diversity And Evolution Of Lizard Osteoderms. The FASEB Journal, 36(S1). https://doi.org/10.1096/fasebj.2022.36.S1.R3199