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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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Herschend, J., Ernst, M., Koren, K., Melnik, A. V., da Silva, R. R., Røder, H. L., Damholt, Z. B. V., Hägglund, P., Svensson, B., Sørensen, S. J., Kühl, M., Dorrestein, P. C. & Burmølle, M. (2022). Metabolic Profiling of Interspecies Interactions During Sessile Bacterial Cultivation Reveals Growth and Sporulation Induction in Paenibacillus amylolyticus in Response to Xanthomonas retroflexus. Frontiers in Cellular and Infection Microbiology, 12, Article 805473. https://doi.org/10.3389/fcimb.2022.805473
Chakraborty, A., Rattray, J. E., Drake, S. S., Matthews, S., Li, C., Jørgensen, B. B. & Hubert, C. R. J. (2022). Metabolic responses of thermophilic endospores to sudden heat-induced perturbation in marine sediment samples. Frontiers in Microbiology, 13, Article 958417. https://doi.org/10.3389/fmicb.2022.958417
Pellerin, A., Lotem, N., Walter Anthony, K., Eliani Russak, E., Hasson, N., Røy, H., Chanton, J. P. & Sivan, O. (2022). Methane production controls in a young thermokarst lake formed by abrupt permafrost thaw. Global Change Biology, 28(10), 3206-3221. https://doi.org/10.1111/gcb.16151
Šantl-Temkiv, T., Amato, P., Casamayor, E. O., Lee, P. K. H. & Pointing, S. B. (2022). Microbial ecology of the atmosphere. FEMS Microbiology Reviews, 46(4), Article fuac009. https://doi.org/10.1093/femsre/fuac009
Wang, A., Wang, B., Guo, Z., Cai, W. & Liu, W. (2022). Microbial electrochemical communication in carbon and electron flow for CO2 methanation. In Z. J. Ren & K. Pagilla (Eds.), Pathways to Water Sector Decarbonization, Carbon Capture and Utilization (pp. 227-247). IWA Publishing. https://doi.org/10.2166/9781789061796_0227
Campbell, K., Matero, I., Bellas, C., Turpin-Jelfs, T., Anhaus, P., Graeve, M., Fripiat, F., Tranter, M., Landy, J. C., Sanchez-Baracaldo, P., Leu, E., Katlein, C., Mundy, C. J., Rysgaard, S., Tedesco, L., Haas, C. & Nicolaus, M. (2022). Monitoring a changing Arctic: Recent advancements in the study of sea ice microbial communities. Ambio, 51(2), 318–332. https://doi.org/10.1007/s13280-021-01658-z
Knudsen, S. W., Hesselsøe, M., Thaulow, J., Agersnap, S., Hansen, B. K., Jacobsen, M. W., Bekkevold, D., Jensen, S. K. S., Møller, P. R. & Andersen, J. H. (2022). Monitoring of environmental DNA from nonindigenous species of algae, dinoflagellates and animals in the North East Atlantic. Science of the Total Environment, 821, Article 153093. https://doi.org/10.1016/j.scitotenv.2022.153093
Mortensen, J., Rysgaard, S., Winding, M. H. S., Juul-Pedersen, T., Arendt, K. E., Lund, H., Stuart-Lee, A. E. & Meire, L. (2022). Multidecadal Water Mass Dynamics on the West Greenland Shelf. Journal of Geophysical Research: Oceans, 127(7), Article e2022JC018724. https://doi.org/10.1029/2022JC018724
Liu, J., Pellerin, A., Wang, J., Rickard, D., Antler, G., Zhao, J., Wang, Z., Jørgensen, B. B. & Ono, S. (2022). Multiple sulfur isotopes discriminate organoclastic and methane-based sulfate reduction by sub-seafloor pyrite formation. Geochimica et Cosmochimica Acta, 316, 309-330. https://doi.org/10.1016/j.gca.2021.09.026
Wang, B., Liu, W., Zhang, Y. & Wang, A. (2022). Natural solar intermittent-powered electromethanogenesis towards green carbon reduction. Chemical Engineering Journal, 432, Article 134369. https://doi.org/10.1016/j.cej.2021.134369
Castellar, J. A. C., Torrens, A., Buttiglieri, G., Monclús, H., Arias, C. A., Carvalho, P. N., Galvao, A. & Comas, J. (2022). Nature-based solutions coupled with advanced technologies: An opportunity for decentralized water reuse in cities. Journal of Cleaner Production, 340, Article 130660. https://doi.org/10.1016/j.jclepro.2022.130660
Cardini, U., Marin-Guirao, L., Montilla, L. M., Marzocchi, U., Chiavarini, S., Rimauro, J., Quero, G. M., Petersen, J. M. & Procaccini, G. (2022). Nested interactions between chemosynthetic lucinid bivalves and seagrass promote ecosystem functioning in contaminated sediments. Frontiers in Plant Science, 13, Article 918675. https://doi.org/10.3389/fpls.2022.918675
Campbell, K., Lange, B. A., Landy, J. C., Katlein, C., Nicolaus, M., Anhaus, P., Matero, I., Gradinger, R., Charette, J., Duerksen, S., Tremblay, P., Rysgaard, S., Tranter, M., Haas, C. & Michel, C. (2022). Net heterotrophy in High Arctic first-year and multi-year spring sea ice. Elementa, 10(1), Article 00040. https://doi.org/10.1525/elementa.2021.00040
Kristensen, L., Malte, C. L., Malte, H., Wang, T. & Williams, C. J. A. (2022). Obesity prolongs induction times in reptiles. Comparative Biochemistry and Physiology -Part A : Molecular and Integrative Physiology, 271, Article 111255. https://doi.org/10.1016/j.cbpa.2022.111255
Mayer, M., Olsen, K., Schulz, B., Matzen, J., Nowak, C., Thomsen, P. F., Hansen, M. M., Vedel-Smith, C. & Sunde, P. (2022). Occurrence and Livestock Depredation Patterns by Wolves in Highly Cultivated Landscapes. Frontiers in Ecology and Evolution, 10, Article 783027. https://doi.org/10.3389/fevo.2022.783027
Ciannelli, L., Neuheimer, A. B., Stige, L. C., Frank, K. T., Durant, J. M., Hunsicker, M., Rogers, L. A., Porter, S., Ottersen, G. & Yaragina, N. A. (2022). Ontogenetic spatial constraints of sub-arctic marine fish species. Fish and Fisheries, 23(2), 342-357. https://doi.org/10.1111/faf.12619
Weber, R. E., Damsgaard, C., Fago, A., Val, A. L. & Moens, L. (2022). Ontogeny of hemoglobin‑oxygen binding and multiplicity in the obligate air-breathing fish Arapaima gigas. Comparative Biochemistry and Physiology -Part A : Molecular and Integrative Physiology, 268, Article 111190. https://doi.org/10.1016/j.cbpa.2022.111190
Trujillo, W., Rivera-Rondón, C. A., Jácome, J., García, N., Eiserhardt, W. L. & Balslev, H. (2022). Palm functional trait responses to local environmental factors in the Colombian Amazon. Journal of Tropical Ecology, 38(1), 39-47. https://doi.org/10.1017/S0266467421000493
Kealy, R. A., Goldstein, J., Riisgård, H. U., Brewer, J. R., Solovyeva, V. & Funch, P. (2022). Particle capture and transport in the demosponge Halichondria panicea: Speed talk and poster. Abstract from 11th World Sponge Symposium, Leiden, Netherlands.
Zilius, M., Daunys, D., Bartoli, M., Marzocchi, U., Bonaglia, S., Cardini, U. & Castaldelli, G. (2022). Partitioning benthic nitrogen cycle processes among three common macrofauna holobionts. Biogeochemistry, 157(2), 193-213. https://doi.org/10.1007/s10533-021-00867-8
Escobar, S., Helmstetter, A. J., Montúfar, R., Couvreur, T. L. P. & Balslev, H. (2022). Phylogenomic relationships and historical biogeography in the South American vegetable ivory palms (Phytelepheae). Molecular Phylogenetics and Evolution, 166, Article 107314. https://doi.org/10.1016/j.ympev.2021.107314
Eiserhardt, W. L., Bellot, S., Cowan, R. S., Dransfield, J., Hansen, L. E. S. F., Heyduk, K., Rabarijaona, R. N., Rakotoarinivo, M. & Baker, W. J. (2022). Phylogenomics and generic limits of Dypsidinae (Arecaceae), the largest palm radiation in Madagascar. Taxon, 71(6), 1170-1195. https://doi.org/10.1002/tax.12797