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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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Schultz, U. P., Burgaard, K., Christensen, F. G. & Knudsen, J. L. (2003). Compiling Java for low-end embedded systems. In Proceedings of the 2003 ACM SIGPLAN conference on Languages, compilers, and tools for embedded systems (pp. 42-50). Association for Computing Machinery.
Schultz, U. P., Lawall, J. L. & Consel, C. (2003). Automatic program specialization for Java. ACM Transactions on Programming Languages and Systems, 25(4), 452-499.
Schwartzbach, M. I. (2003). Rapport om datalogi i gymnasiet. Undervisningsministeriet.
Srba, J., Guldstrand Larsen, K. (Ed.) & Nielsen, M. (Ed.) (2001). On the Power of Labels in Transition Systems. In Lecture Notes in Computer Science: Proceedings of the 12th International Conference on Concurrency Theory (2154 of Lecture Notes in Computer Science ed., Vol. 2154/2001, pp. 277-291). Springer.
Brodal, G. S., Fagerberg, R., Pedersen, C. N. S., Östlin, A., Orejas, F. (Ed.), Spirakis, P. G. (Ed.) & Leeuwen, J. V. (Ed.) (2001). The Complexity of Constructing Evolutionary Trees Using Experiments. In Lecture Notes In Computer Science; Vol. 2076: Proceedings of the 28th International Colloquium on Automata, Languages and Programming (2076 of Lecture Notes in Computer Science ed., Vol. 2076/2001, pp. 140-151). Springer.
Thomsen, R., Guervós, J. J. M. (Ed.), Adamidis, P. (Ed.), Beyer, H.-G. (Ed.), Fernández-Villacañas, J. L. (Ed.) & Schwefel, H.-P. (Ed.) (2002). Evolving the Topology of Hidden Markov Models using Evolutionary Algorithms. In Proceedings of the 7th International Conference on Parallel Problem Solving from Nature: Parallel Problem Solving from Nature --- PPSN VII (Lecture Notes in Computer Science ed., Vol. 2439/2002, pp. 861-870). Springer.
Thomsen, R. (2003). Flexible Ligand Docking Using Differential Evolution. In R. Sarker, R. Reynolds, H. Abbass, K. Chen Tan, B. McKay, D. Essam & T. Gedeon (Eds.), The 2003 Congress on Evolutionary Computation, CEC '03 (Vol. 4, pp. 2354-2361). IEEE Press.
Thomsen, R., Boomsma, W., Raidl, G. R. (Ed.), Cagnoni, S. (Ed.), Branke, J. (Ed.), Corne, D. (Ed.), Drechsler, R. (Ed.), Jin, Y. (Ed.), Johnson, C. G. (Ed.), Machado, P. (Ed.), Marchiori, E. (Ed.), Rothlauf, F. (Ed.), Smith, G. D. (Ed.) & Squillero, G. (Ed.) (2004). Multiple Sequence Alignment Using SAGA: Investigating the Effects of Operator Scheduling, Population Seeding, and Crossover Operators. In Applications of Evolutionary Computing (3005 i Lecture Notes in Computer Science ed., pp. 113-122). Springer.
Thomsen, R., Fogel, G. B., Krink, T., Fogel, D. B. (Ed.), Yao, X. (Ed.), Greenwood, G. (Ed.), Iba, H. (Ed.), Marrow, P. (Ed.) & Shackleton, M. (Ed.) (2002). A Clustal Alignment Improver Using Evolutionary Algorithms. In Proceedings of the 2002 Congress on evolutionary Computation, 2002. CEC '02 (Vol. 1, pp. 121-126). IEEE Press.
Thomsen, R., Fogel, G. B. & Krink, T. (2003). Improvement of Clustal-Derived Sequence Alignments with Evolutionary Algorithms. In 2003 Congress on Evolutionary Computation (pp. 1499-1507). IEEE Press.
Thomsen, R., Krink, T., Guervós, J. J. M. (Ed.), Adamidis, P. (Ed.), Beyer, H.-G. (Ed.), Fernández-Villacañas, J.-L. (Ed.) & Schwefel, H.-P. (Ed.) (2002). Self-Adaptive Operator Scheduling using the Religion-Based EA. In Lecture Notes in Computer Science: Parallel Problem Solving from Nature - PPSN VII (2439 of Lecture Notes in Computer Science ed., Vol. 2439/-1 / 2002, pp. 214-223). Springer.
Torgersen, M. (2002). Inheritance is Specialisation. In A. P. Black, E. Ernst, P. Grogono & M. Sakkinen (Eds.), Object-oriented Technology ECOOP 2002 Workshop Reader (Vol. 12, pp. 95-101). Springer LNCS.
Torgersen, M. & Odersky, M. (Ed.) (2004). The Expression Problem Revisited - Four New Solutions using Generics. In Proceedings of the 18th European Conference on Object-Oriented Programming (ECOOP'04) (3086 i Lecture Notes in Computer Science ed., pp. 123-146). Springer.
Torgersen, M. (2001). Unifying Abstractions. (DAIMI PhD Dissertation PD-01-2 ed.) Department of Computer Science.
Ursem, R. K., Filipic, B. & Krink, T. (2002). Exploring the Performance of an Evolutionary Algorithm for Greenhouse Control. Journal of Computing and Information Technology, 10(3), 195-201.
Ursem, R. K., Krink, T., Fogel, D. B. (Ed.), Yao, X. (Ed.), Greenwood, G. (Ed.), Iba, H. (Ed.), Marrow, P. (Ed.) & Shackleton, M. (Ed.) (2002). Genetic Programming with Smooth Operators for Arithmetic Expressions: Diviplication and Subdition. In Proceedings of the Evolutionary on Computation 2002.: CEC'02 (Vol. 2, pp. 1372-1377). IEEE Computer Society Press.
Ursem, R. K., Krink, T. & Filipic, B. (2002). A Numerical Simulator for a Crop-Producing Greenhouse. EVALife Technical Report, (2002-01).
Ursem, R. K., Krink, T., Jensen, M. T. & Michalewicz, Z. (2002). Analysis and Modeling of Control Tasks in Dynamic Systems. I E E E Transactions on Evolutionary Computation, 6(4), 378-389.
Varacca, D., Völzer, H., Winskel, G., Gardner, P. (Ed.) & Yoshida, N. (Ed.) (2004). Probabilistic Event Structures and Domains. In Ikke angivet (3170 i Lecture Notes in Computer Science ed., pp. 481-496). Springer.
Vesterstrøm, J. S. (2003). Physical Mapping Using Simulated Annealing and Evolutionary Algorithms. In Proceedings of the IEEE Congress on Evolutionary Computation, CEC 2003, 8 -12 December 2003, Canberra, Australien (Vol. 1, pp. 327- 334). IEEE Press.
Vesterstrøm, J. S. & Riget, J. (2002). A Diversity-Guided Particle Swarm Optimizer - the ARPSO. EVALife Technical Report, (2002-02).
Vesterstrøm, J. S., Riget, J., Krink, T., Fogel, D. B. (Ed.), Yao, X. (Ed.), Greenwood, G. (Ed.), Iba, H. (Ed.), Marrow, P. (Ed.) & Shackleton, M. (Ed.) (2002). Division of Labor in Particle Swarm Optimisation. In Ikke angivet (pp. 1570-1575). IEEE Press.
Wagealla, W., Carbone, M., English, C., Terzis, S., Lowe, H., Nixon, P., Dimitrakos, T. (Ed.) & Martinelli, F. (Ed.) (2004). A Formal Model for Trust Lifecycle Management. In Proceedings of IEEE International Conference on Software Engineering and Formal Methods (SEFM '03), 2003. (pp. 181-192). IIT-CNR.
Wells, L. M., Boukerche, A. (Ed.), Das, S. K. (Ed.) & Majumdar, S. (Ed.) (2002). Performance Analysis Using Coloured Petri Nets. In Proceedings, 10th IEEE International Symposium on Modeling, Analysis and Simulation of Computer and Telecommunications Systems, 2002 (pp. 217-221). IEEE Computer Society Press.
Wells, L., Christensen, S., Kristensen, L. M., Mortensen, K. H., German, R. (Ed.) & Haverkort, B. (Ed.) (2001). Simulation Based Performance Analysis of Web Servers. In Proceedings of 9th International Workshop on Petri Nets and Performance Models (pp. 59-68). IEEE Computer Society Press.
Westergaard, M. & Kindler, E. (Ed.) (2004). Towards a High-level Petri Net Type Type Definition. In Proceeding of the Workshop on the Definition, Implementation and Application of a Standard Interchange Format for Petri Nets
Winskel, G., Ésik, Z. (Ed.) & Ingólfsdóttir, A. (Ed.) (2002). Calculus for Categories. In Fixed Points in Computer Science (NS-02-2 of Notes Series ed., pp. 20-21).
Winskel, G., Ehrhard, T. (Ed.), Girard, J. (Ed.), Ruet, P. (Ed.) & Scot, P. (Ed.) (2004). Linearity and Nonlinearity in Distributed Computation. In Linear Logic in Computer Science (316 of London Math. Soc. Lecture Note Series ed., pp. 151-188). Cambridge University Press.
Winskel, G. (2003). Presheaf models for CCS-like languages. Theoretical Computer Science, 300(1-3), 47-89.
Winskel, G., Zappa Nardelli, F., Lévy, J. (Ed.), Mayr, E. (Ed.) & Mitchell, J. (Ed.) (2004). New-HOPLA: A Higher-Order Process Language with Name Generation. In Ikke angivet (pp. 521-534). Kluwer Academic Publishers.
Mogensen, P. H. (Ed.) (2004). Documentation of Appliances & Interaction Devices: Deliverable 16. In EU,IST, FET, DC project, Workspace: Distributed Work support through component based SPAtial Computing Environments (Deliverable 16 ed., Vol. WS-UAA-20, pp. 1-22). Datalogisk Institut, Aarhus Universitet. http://www.daimi.au.dk/workspace/Deliverables/WS-D16-v1-0.pdf
Workspace & Mogensen, P. H. (Ed.) (2003). Documentation of Infrastructure. In EU,IST, FET, DC project, Workspace: Distributed Work support through component based SPAtial Computing Environments  IST-2000-25290 (17 - WS-UAA-21 ed., Vol. WS-D17-v1-0, pp. 1-28). Datalogisk Institut. http://www.daimi.au.dk/workspace/Deliverables/WS-D17-v1-0.pdf
Workspace & Mogensen, P. H. (Ed.) (2003). Final Demonstrator Status: Deliverable 5: Status report, month 36. In EU,IST, FET, DC project, Workspace: IST-2000-25290:Distributed Work support through component based SPAtial Computing Environments (Deliverable 5 ed., Vol. WS-D5-v1, pp. 1-46). Datalogisk Institut. http://www.daimi.au.dk/workspace/Deliverables/WS-D5-v1.0.pdf
Workspace & Mogensen, P. H. (Ed.) (2003). Final Evaluations: Deliverable 18; In EU,IST, FET, DC project, Workspace: Distributed Work support through component based SPAtial Computing Environments (Deliverable 18 ed., Vol. WS-UAA-22, pp. 1-29). Datalogisk Institut. http://www.daimi.au.dk/workspace/Deliverables/WS-D18-v1-0.pdf
Workspace & Mogensen, P. H. (Ed.) (2003). Final Project Report. In EU,IST, FET, DC project, Workspace: Distributed Work support through component based SPAtial Computing Environments (Final Report ed., Vol. WS-UAA-23, pp. 1-7). Datalogisk Institut. http://www.daimi.au.dk/workspace/Deliverables/WS-FinalReportV1-0.pdf
Zellweger, P. T., Bouvin, N. O., Jehøj, H. & Mackinlay, J. D. (2001). Fluid Annotations in a Open World. In K. Grønbæk, H. Davis & Y. Douglas (Eds.), Proceedings of the twelfth ACM conference on Hypertext and Hypermedia (pp. 9-18). Association for Computing Machinery. https://doi.org/10.1145/504216.504224
Zimmer, P. (2004). Using Ambients to Control Resources. International Journal of Information Security, 2(3-4), 126-144.
van den Brand, M., Iversen, J., Mosses, P. D., Hedin, G. (Ed.) & Van Wyk, E. (Ed.) (2004). An Action Environment. In Proceedings of the Fourth Workshop on Language Descriptions, Tools, and Applications (Vol. 110, pp. 149-168). Elsevier.
van den Brand, M., Iversen, J., Mosses, P. D., Hedin, G. (Ed.) & Van Wyk, E. (Ed.) (2004). The Action Environment: Tool Demonstration. In Ikke angivet (pp. 177-180). Elsevier.
Ackermann, M. D., Pedersen, T. M., Henriksen, B. L. M., Robach, O., Bobaru, S. C., Popa, I., Quiros, C., Kim, H., Hammer, B., Ferrer, S. & Frenken, J. W. M. (2005). Structure and reactivity of surface oxides on Pt(110) during catalytic CO Oxidation. Physical Review Letters, 95.
Aerts, C., Baglin, A., Christensen-Dalsgaard, J., Goupil, M., Houdek, G., Kjeldsen, H., Kollath, Z., Kurtz, D., Lebreton, Y., Maceroni, C., Noels, A., Schwarzenberg-Czerny, A., Skoda, P., Solano, E. & Thompson, M. J. (2004). "ENEAS": the European Network of Excellence in AsteroSeismology. In Second Eddington Workshop: Stellar structure and habitable planet finding. 9.-11. april 2003 (pp. 247-250)
Aerts, C., Handler, G., Arentoft, T., Vandenbussche, B., Medupe, R. & Sterken, C. (2002). The delta Scuti star XX Pyx as an ellipsoidal variable. Royal Astronomical Society. Monthly Notices, 333, 35-39.
Aerts, C. M., Strange, P., Horne, M., Temmerman, W. M., Szotek, Z. & Svane, A. (2004). Half-metallic to insulating behavior of rare-earth nitrides. Physical Review B, 69, 045115-1.
Africh, C., Esch, F., Li, W. X., Corso, M., Hammer, B., Rosei, R. & Comelli, G. (2004). Two-step reaction on a strained, nanoscale segmented surface. Physical Review Letters, 93(12), 126104. http://www.phys.au.dk/~hammer/77.pdf
Afrosimov, V. V., Basalaev, A. A., Fastrup, B., Horsdal, E., Panov, M. N., Tulub, A. V. & Yakovlev, D. S. (2003). Ionization and fragmentation of Freon-12 molecules in collisions with protons. J. Phys. B: At. Mol. Opt. Phys., 36, 1991-2000.

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Liang, J., Gamarra, J. G. P., Picard, N., Zhou, M., Pijanowski, B., Jacobs, D. F., Reich, P. B., Crowther, T. W., Nabuurs, G. J., de-Miguel, S., Fang, J., Woodall, C. W., Svenning, J. C., Jucker, T., Bastin, J. F., Wiser, S. K., Slik, F., Hérault, B., Alberti, G. ... Serra-Diaz, J. M. (2022). Co-limitation towards lower latitudes shapes global forest diversity gradients. Nature Ecology & Evolution, 6(10), 1423-1437. https://doi.org/10.1038/s41559-022-01831-x
Fricke, E. C., Hsieh, C., Middleton, O., Gorczynski, D., Cappello, C. D., Sanisidro, O., Rowan, J., Svenning, J. C. & Beaudrot, L. (2022). Collapse of terrestrial mammal food webs since the Late Pleistocene. Science, 377(6609), 1008-1011. https://doi.org/10.1126/science.abn4012
Knutsen, H., Catarino, D., Rogers, L., Sodeland, M., Mattingsdal, M., Jahnke, M., Hutchings, J. A., Mellerud, I., Espeland, S. H., Johanneson, K., Roth, O., Hansen, M. M., Jentoft, S., André, C. & Jorde, P. E. (2022). Combining population genomics with demographic analyses highlights habitat patchiness and larval dispersal as determinants of connectivity in coastal fish species. Molecular Ecology, 31(9), 2562-2577. https://doi.org/10.1111/mec.16415
Sert, M. F., Niemann, H., Reeves, E. P., Granskog, M. A., Hand, K. P., Kekäläinen, T., Jänis, J., Rossel, P. E., Ferré, B., Silyakova, A. & Gründger, F. (2022). Compositions of dissolved organic matter in the ice-covered waters above the Aurora hydrothermal vent system, Gakkel Ridge, Arctic Ocean. Biogeosciences, 19(8), 2101-2120. https://doi.org/10.5194/bg-19-2101-2022
Willi, Y., Kristensen, T. N., Sgro, C. M., Weeks, A. R., Ørsted, M. & Hoffmann, A. A. (2022). Conservation genetics as a management tool: The five best-supported paradigms to assist the management of threatened species. Proceedings of the National Academy of Sciences (PNAS), 119(1), Article e2105076119. https://doi.org/10.1073/pnas.2105076119
Știrbu, M. I., Roibu, C. C., Carrer, M., Mursa, A., Unterholzner, L. & Prendin, A. L. (2022). Contrasting Climate Sensitivity of Pinus cembra Tree-Ring Traits in the Carpathians. Frontiers in Plant Science, 13, Article 855003. https://doi.org/10.3389/fpls.2022.855003
Milsom, W. K., Gilmour, K. M., Perry, S., Gargaglioni, L. H., Hedrick, M. S., Kinkead, R. & Wang, T. (2022). Control of Breathing in Ectothermic Vertebrates. Comprehensive Physiology, 12(4), 3869-3988. https://doi.org/10.1002/cphy.c210041
Liu, L.-L., Yin, M.-Q., Guo, X., Wang, J.-W., Cai, Y.-F., Wang, C., Yu, X., Du, N., Brix, H., Eller, F., Lambertini, C. & Guo, W. (2022). Cryptic lineages and potential introgression in a mixed‐ploidyspecies (Phragmites australis) across temperate China. Journal of Systematics and Evolution, 60(2), 398-410. https://doi.org/10.1111/jse.12672
Silva, F., Coward, F., Davies, K., Elliott, S., Jenkins, E., Newton, A. C., Riris, P., Vander Linden, M., Bates, J., Cantarello, E., Contreras, D. A., Crabtree, S. A., Crema, E. R., Edwards, M., Filatova, T., Fitzhugh, B., Fluck, H., Freeman, J., Klein Goldewijk, K. ... Williams, A. (2022). Developing Transdisciplinary Approaches to Sustainability Challenges: The Need to Model Socio-Environmental Systems in the Longue Durée. Sustainability, 14(16), Article 10234. https://doi.org/10.3390/su141610234
Crossley, J. L., Lawrence, T., Tull, M., Elsey, R. M., Wang, T. & Crossley, D. A. (2022). Developmental oxygen preadapts ventricular function of juvenile American alligators, Alligator mississippiensis. American journal of physiology. Regulatory, integrative and comparative physiology, 323(5), R739-R748. https://doi.org/10.1152/ajpregu.00059.2022
Estes, E. R., Berti, D., Findlay, A. J., Hochella, M. F., Shaw, T. J., Yücel, M., De Carlo, E. H. & Luther, G. W. (2022). Differential Behavior of Metal Sulfides in Hydrothermal Plumes and Diffuse Flows. ACS Earth and Space Chemistry, 6(6), 1429-1442. https://doi.org/10.1021/acsearthspacechem.1c00377
Flensburg, S. B., Garm, A. L. & Funch, P. (2022). Diurnal rhythms and light regulated behaviour in the demosponge Tethya wilhelma. Poster session presented at 11th World Sponge Conference, Leiden, Netherlands.
Wei, F., Wang, S., Fu, B., Wang, L., Zhang, W., Wang, L., Pan, N. & Fensholt, R. (2022). Divergent trends of ecosystem-scale photosynthetic efficiency between arid and humid lands across the globe. Global Ecology and Biogeography, 31(9), 1824-1837. https://doi.org/10.1111/geb.13561
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