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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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Baumeister, H., Cerioli, M., Haxthausen, A., Mossakowski, T., Mosses, P. D., Sannella, D., Tarlecki, A. & Mosses, P. D. (Ed.) (2004). Casl Semantics. In Casl Reference Manual, The Complete Documentation of the Common Algebraic Specification Language (2960 i Lecture Notes in Computer Science ed., pp. 115-271). Springer.
Andersen, P., Beaudouin-Lafon, M., Mackay, W. E., Janecek, P., Lassen, M., Jensen, M., Mortensen, K., Munck, S., Ratzer, A., Ravn, K., Christensen, S., Jensen, K., Colom, J. M. (Ed.) & Koutny, M. (Ed.) (2001). CPN/Tools: A Post-WIMP Interface for Editing and Simulating Coloured Petri Nets. In G. Goos, J. Hartmanis & J. van Leeuwen (Eds.), Applications and Theory of Petri Nets 2001 (Vol. 2075, pp. 71-80). Springer. https://doi.org/10.1007/3-540-45740-2_6
Bender, M. A., Brodal, G. S., Fagerberg, R., Ge, D., He, S., Hu, H., Iacono, J. & López-Ortiz, A. (2003). The Cost of Cache-Oblivious Searching. In Proc. 44th Annual IEEE Symposium on Foundations of Computer Science (FOCS): IEEE Computer Society Press, Washington D.C. (Vol. Session 6, pp. 271-282). IEEE Computer Society Press.
Bendtsen, C. N., Krink, T., Fogel, D. B. (Ed.), Yao, X. (Ed.), Greenwood, G. (Ed.), Iba, H. (Ed.), Marrow, P. (Ed.) & Shackleton, M. (Ed.) (2002). Dynamic Memory Model for Non-Stationary Optimization. In Proceedings of the 2002 Congress on Evolutionary Computation, 2002, CEC '02 (Vol. 1, pp. 145-150). IEEE Press.
Bendtsen, C. N., Krink, T., Fogel, D. B. (Ed.), Yao, X. (Ed.), Greenwood, G. (Ed.), Iba, H. (Ed.), Marrow, P. (Ed.) & Shackleton, M. (Ed.) (2002). Phone Routing using the Dynamic Memory Model. In Proceedings of the 2002 Congress on Evolutionary Computation: CEC '02 (Vol. 1, pp. 992-997). IEEE Press.
Bennedsen, J. & Caspersen, M. E. (2003). Rationale for the Design of a Web-based Programming Course for Adults. In Proccedings of ICOOL 2003 International Conference on Open and Online Learning.
Bennedsen, J. & Caspersen, M. E. (2003). A Model-First Approach to Teaching Introductory Object-Orientation. In Joint proceedings of the Workshops on Multiparadigm Programming with Object-Oriented Languages (MPOOL’03) Declarative Programming in the Context of Object-Oriented Languages (DP-COOL’03): NIC Series (Vol. 27). Dorothea Rohrmann. http://www.intermedia.uio.no/cool/WS-03.html
Bennedsen, J. & Caspersen, M. E. (2004). Programming in Context: A Model-First Approach to CS1. In Proceedings of the 35th SIGCSE technical symposium on Computer science education (pp. 477-481). Association for Computing Machinery. https://doi.org/10.1145/971300.971461
Bennedsen, J. & Caspersen, M. E. (2004). Teaching Object-Oriented Programming - Towards Teaching a Systematic Programming Process. Paper presented at Eighth Workshop on Pedagogies and Tools for the Teaching and Learning of Object Oriented Concepts. Affiliated with 18th European Conference on Object-Oriented Programming (ECOOP 2004), Oslo, Norway.
Bertelsen, O. W., Korpela, M. (Ed.) & Mursu, A. (Ed.) (2004). Activity Walkthrough - A Quick User Interface Evaluation without Users. In Ikke angivet (PB-574 of Daimi Reports ed., pp. 17-21). Aarhus University.
Bertelsen, O. W. (2003). Activity Walkthrough - a cognitive walkthrough in activity theory terms. In M. Hertzum & S. Heilesen (Eds.), Proceedings of Third Danish HCI Research Symposium (pp. 17-20). Roskilde Universitet.
Bertelsen, O. W. (2004). Panel Session: Activity Theory and User Centered Design of IT Systems - the case of the ActAD approach. Session 20; 15:30 - 17:30. 04.09.2004. In Program and Abstracts: Third Nordic Conference on Cultural and Activity Research. 3-5 September 2004. København (Vol. Session 20, pp. 30-30 + 118-120). Danmarks Pædagogiske Universitetsforlag.
Bertelsen, O. W. (2001). Proceedings of the First Danish Human-Computer Interaction Research Symposium. In DAIMI PB-555 (pp. A-59). Department of Computer Science.
Bertelsen, O. W. (2004). The Activity Walkthrough: An Expert Review Method Based on Activity Theory. In Proceedings of the third Nordic conference on Human-computer interaction (pp. 251-254). Association for Computing Machinery. https://doi.org/10.1145/1028014.1028052
Bertelsen, O. W. (2004). Transparency by Tertiary Artefactness. In Workshop on Aesthetic Approaches to Human-Computer Interaction (Vol. DAIMI PB-572, pp. 1-4). Department of Computer Science.
Bertelsen, O. W., Bødker, S. & Caroll, J. M. (Ed.) (2003). Activity Theory. In HCI Models, Theories and Frameworks: Toward an Interdisciplinary Science (Vol. Chapter 11, pp. 291-324). Morgan Kaufmann.
Bertelsen, O. W. & Bødker, S. (2001). Cooperation in massively distributed information spaces. In Proceedings of the seventh conference on European Conference on Computer Supported Cooperative Work (pp. 1-17). Kluwer Academic Publishers. http://www.ecscw.org/2001.htm
Bertelsen, O. W. & Bødker, S. (2002). Interaction through multi-artifacts. In S. Bagnara, S. Pozzi, A. Rizzo & P. K. Wright (Eds.), Proceedings of the 11th European Conference on Cognitive Ergonomics European Association of Cognitive Ergonomcs.
Bertelsen, O. W., Eskildsen, T. & Sperschneider, W. (2003). Programming in the Kitchen. In M. Rauterberg, M. Menozzi & J. Wesson (Eds.), Human-Computer Interaction INTERACT '03: IFIP TC13 International Conference on Human-Computer Interaction: L2-M-3: Empirical Studies (pp. 375-382). IOS Press.
Bertelsen, O. W. & Godsk, M. (2004). WAW - An Activity Theory Based Tool for Early Website Usability Assessment. International Journal of Human Resources Development and Management, 4(1), 73-93.
Besenbacher, S., Mailund, T., Westh-Nielsen, L. & Pedersen, C. N. S. (2004). RBT - A Tool for Building Refined Buneman Trees. Bioinformatics, 21(8), 1711-1712.
Bidoit, M. & Mosses, P. D. (Eds.) (2004). Casl User Manual - Introduction to Using the Common Algebraic Specification Language. (2900 i Lecture Notes in Computer Science ed.) Springer.
Biernacka, M., Biernacki, D. & Danvy, O. (2004). An Operational Foundation for Delimited Continuations. In Proceedings of the Fourth ACM SIGPLAN Workshop on Continuations (pp. 25-33). Association for Computing Machinery.
Biernacki, D. & Danvy, O. (2004). From Interpreter to logic Engine by Defunctionalization. In M. Bruynooghe (Ed.), Logic Based Program Synthesis and Transformation: 13th International Symposium, LOPSTR 2003, Uppsala, Sweden, August 25-27, 2003, Revised Selected Papers (pp. 143-159). Springer. https://doi.org/10.1007/978-3-540-25938-1_13
Billington, J., Christensen, S., Hee, K. V., Kindler, E., Kummer, O., Petrucci, L., Post, R., Stehno, C., Weber, M., Aalst, W. M. P. V. D. (Ed.) & Best, E. (Ed.) (2003). The Petri Net Markup Language: Concepts, Technology, and Tools. In Ikke angivet (2679 of Lecture Notes in Computer Science ed., pp. 483-505). Springer.
Billington, J., Gallasch, G. E., Kristensen, L. M. & Mailund, T. (2004). Exploiting Equivalence Reduction and the Sweep-Line Method for Detecting Terminal States. I E E E Transactions on Systems, Man and Cybernetics, Part A: Systems & Humans, 34(1), 23-37.
Bjerrum, E., Bødker, S., Dourish, P. (Ed.) & Schmidt, K. (Ed.) (2003). Learning and living in the "New office". In K. Kuutti, E. H. Karsten, P. Dourish, G. Fitzpatrick & K. Schmidt (Eds.), Proceedings of the 2003 Eighth European Conference on Computer-Supported Cooperative Work (pp. 199-218). Kluwer Academic Publishers.
Black, A. P., Ernst, E., Grogono, P., Sakkinen, M., Arévalo, G., Crespo, Y., Huchard, M. & Dao, M. (Eds.) (2002). Proceedings of the Inheritance Workshop at ECOOP 2002. In J. Hernández & A. Moreira (Eds.), Object-Oriented Technology ECOOP 2002 Workshop Reader: ECOOP 2002 Workshops and Posters Málaga, Spain, June 10–14, 2002 Proceedings (pp. 117-134). Springer. https://doi.org/10.1007/3-540-36208-8_10
Bouvin, N. O. & Bertelsen, O. W. (Ed.) (2001). Creating and Styling Fluid Annotations on Third-Party Web Pages. In Proceedings of First Danish Human-Computer Interaction Reseach Symposium (DAIMI PB-555 ed., pp. 12-13). Department of Computer Science.
Bouvin, N. O. (2002). Open Hypermedia in a Peer-to-Peer Context. In J. Blustein (Ed.), Proceedings of the thirteenth ACM conference on Hypertext and hypermedia (Vol. SESSION: Next-Gen Open Hypermedia, Part Two, pp. 138-139). Association for Computing Machinery. https://doi.org/10.1145/513338.513373
Bouvin, N. O., Kock Will, U., Larsen, D., De Roure, D. C. & Thomsen, M. K. (2002). Peer-to-Peer Hypertext Panel. In HYPERTEXT 2002: Proceedings of the 13th ACM Conference on Hypertext and Hypermedia (Vol. SESSION: Narratives and Literary Hypertext, pp. 69-71). Society for Industrial and Applied Mathematics.
Bouvin, N. O., Zellweger, P. T., Grønbæk, K. & Mackinlay, J. D. (2002). Fluid annotations through open hypermedia: Using and extending emerging Web standards. In D. Lassner, D. De Roure & A. Iyengar (Eds.), Proceedings of the 11th international conference on World Wide Web (pp. 160-171). Association for Computing Machinery. https://doi.org/10.1145/511446.511468
Brabrand, C., Møller, A. & Schwartzbach, M. I. (2001). Static Validation of Dynamically Generated HTML. In Proceedings of the 2001 ACM SIGPLAN-SIGSOFT workshop on Program analysis for software tools and engineering (pp. 38-45). Association for Computing Machinery. https://doi.org/10.1145/379605.379657
Brabrand, C. & Schwartzbach, M. I. (2002). Growing Languages with Metamorphic Syntax Macros. In P. Thiemann (Ed.), Proceedings of the 2002 ACM SIGPLAN workshop on Partial evaluation and semantics-based program manipulation (pp. 31-40). Association for Computing Machinery. https://doi.org/10.1145/503032.503035
Brabrand, C., Schwartzbach, M. I., Vangaard, M., Bryant, B. R. (Ed.) & Saraiva, J. (Ed.) (2003). The METAFRONT System: Extensible Parsing and Transformation. In LDTA'2003 - Language descriptions, Tools and Applications. Proceedings (pp. 592-611). Elsevier. https://doi.org/10.1016/S1571-0661(05)82622-2
Braga, C. D. O., Haeusler, E. H., Meseguer, J., Mosses, P. D. & Leuschel, M. (Ed.) (2003). Mapping Modular SOS to Rewriting Logic. In Logic Program Synthesis and Transformation: LOPSTR (Lecture Notes in Computer Science ed., Vol. 2664/2003, pp. 262-277). Springer.
Braga, C. D. O., Haeusler, E. H., Meseguer, J. & Mosses, P. D. (2003). Mapping Modular SOS to Rewriting Logic. (pp. 262-277). Springer LNCS.
Brand, M. V. D., Mosses, P. D. & Iversen, J. (2004). An Action Environment. In Proceedings of the Fourth Workshop on Language Descriptions, Tools and Applications (Vol. 110, pp. 149-168). Electronic Notes in Theoretical Computer Science.
Brodal, G. S. (2004). Cache-Oblivious Algorithms and Data Structures. In T. Hagerup & J. Katajainen (Eds.), Algorithm Theory - SWAT 2004: 9th Scandinavian Workshop on Algorithm Theory, Humlebaek, Denmark, July 8-10, 2004. Proceedings (pp. 3-13). Springer. https://doi.org/10.1007/978-3-540-27810-8_2
Brodal, G. S. & Fagerberg, R. (2002). Cache Oblivious Distribution Sweeping. In P. Widmayer, S. Eidenbenz, F. Triguero, R. Morales, R. Conejo & M. Hennessy (Eds.), Automata, Languages and Programming: 29th International Colloquium, ICALP 2002 Málaga, Spain, July 8–13, 2002 Proceedings (pp. 426-438). Springer. https://doi.org/10.1007/3-540-45465-9_37
Brodal, G. S., Fagerberg, R., Bose, P. (Ed.) & Morin, P. (Ed.) (2002). Funnel Heap - A Cache Oblivious Priority Queue. In P. Bose & P. Morin (Eds.), Algorithms and Computation: 13th International Symposium, ISAAC 2002 Vancouver, BC, Canada, November 21–23, 2002 Proceedings (pp. 219-228). Springer. https://doi.org/10.1007/3-540-36136-7_20
Brodal, G. S., Fagerberg, R. & Farach-Colton, M. (Ed.) (2003). Lower Bounds for External Memory Dictionaries. In Proceedings of the fourteenth annual ACM-SIAM symposium on Discrete algorithms (pp. 546-554). Society for Industrial and Applied Mathematics.
Brodal, G. S., Fagerberg, R. & Goemans, M. X. (Ed.) (2003). On the Limits of Cache-Obliviousness. In Proceedings of the thirty-fifth annual ACM symposium on Theory of computing (pp. 307-315). Association for Computing Machinery. https://doi.org/10.1145/780542.780589
Brodal, G. S., Fagerberg, R. & Jacob, R. (2001). Cache Oblivious Search Trees via Binary Trees of Small Height. BRICS Report Series, (RS-01-36), 1-20.

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Whitehead, D. A., Ayres, K. A., Gayford, J. H., Ketchum, J. T., Galván-Magana, F. & Christiansen, F. (2022). Aerial photogrammetry of whale sharks (Rhincodon typus) in the Bay of La Paz, using an unoccupied aerial vehicle. Marine Biology, 169(7), Article 94. https://doi.org/10.1007/s00227-022-04085-0
Fang, Z., Brandt, M., Wang, L. & Fensholt, R. (2022). A global increase in tree cover extends the growing season length as observed from satellite records. Science of the Total Environment, 806(Part 3), Article 151205. https://doi.org/10.1016/j.scitotenv.2021.151205
Agersnap, S. (2022). Analysis of coastal marine biodiversity using environmental DNA metabarcoding. [PhD thesis, Aarhus University]. Aarhus Universitet.
Cadiz Escobar, M. I., Hansen, M. M., Fox, A. D. & Sørensen, I. H. (2022). Analyzing the demographic history of Melanitta fusca using whole-genome sequencing data. Poster session presented at Finnish Society for Bioinformatics: Bioinformatics Day 2002, Espoo, Finland.
Vynne, C., Gosling, J., Maney, C., Dinerstein, E., Lee, A. T. L., Burgess, N. D., Fernández, N., Fernando, S., Jhala, H., Jhala, Y., Noss, R. F., Proctor, M. F., Schipper, J., González-Maya, J. F., Joshi, A. R., Olson, D., Ripple, W. J. & Svenning, J. C. (2022). An ecoregion-based approach to restoring the world's intact large mammal assemblages. Ecography, 2022(4). https://doi.org/10.1111/ecog.06098
Perry, S. F. & Wang, T. (2022). A new model for sodium uptake in the zebrafish gill. Acta Physiologica, 234(3), Article e13787. https://doi.org/10.1111/apha.13787
Lundgren, E. J., Ramp, D., Middleton, O. S., Wooster, E. I. F., Kusch, E., Balisi, M., Ripple, W. J., Hasselerharm, C. D., Sanchez, J. N., Mills, M. & Wallach, A. D. (2022). A novel trophic cascade between cougars and feral donkeys shapes desert wetlands. Journal of Animal Ecology, 91(12), 2348-2357. https://doi.org/10.1111/1365-2656.13766
Lammers , A., Bushi, S. N., Zweers, H., Bilde, T., Schramm, A., Garbeva, P. & Lalk, M. (2022). Antimicrobial volatiles emitted by members of the nest microbiome of social spiders. FEMS Microbiology Letters, 369(1), Article fnac088. https://doi.org/10.1093/femsle/fnac088
Feng, X., Enquist, B. J., Park, D. S., Boyle, B., Breshears, D. D., Gallagher, R. V., Lien, A., Newman, E. A., Burger, J. R., Maitner, B. S., Merow, C., Li, Y., Huynh, K. M., Ernst, K., Baldwin, E., Foden, W., Hannah, L., Jørgensen, P. M., Kraft, N. J. B. ... López-Hoffman, L. (2022). A review of the heterogeneous landscape of biodiversity databases: Opportunities and challenges for a synthesized biodiversity knowledge base. Global Ecology and Biogeography, 31(7), 1242-1260. https://doi.org/10.1111/geb.13497
Williams, C., Kirby, A., Marghoub, A., Kever, L., Ostashevskaya-Gohstand, S., Bertazzo, S., Moazen, M., Abzhanov, A., Herrel, A., Evans, S. & Vickaryous, M. (2022). A review of the osteoderms of lizards (Reptilia: Squamata). Biological Reviews, 97(1), 1-19. https://doi.org/10.1111/brv.12788
Khan, C., Blount, D., Parham, J., Holmberg, J., Hamilton, P., Charlton, C., Christiansen, F., Johnston, D., Rayment, W., Dawson, S., Vermeulen, E., Rowntree, V., Groch, K., Levenson, J. J. & Bogucki, R. (2022). Artificial intelligence for right whale photo identification: from data science competition to worldwide collaboration. Mammalian Biology, 102(3), 1025-1042. https://doi.org/10.1007/s42991-022-00253-3
Nguyen-Ngoc, L., Dao, H. V., Lund-Hansen, L. C., Vo, T. S. & Smith, W. O. (2022). A special issue on the 100th Anniversary of Institute of Oceanography, Vietnam Academy of Science and Technology. Regional Studies in Marine Science, 56, Article 102669. https://doi.org/10.1016/j.rsma.2022.102669
Kolyaie, S. (2022). Assessing Arctic vegetation across scales: Insight from remote sensing data. [PhD thesis, Aarhus University]. Aarhus Universitet.
Dubos, N., Préau, C., Lenormand, M., Papuga, G., Monsarrat, S., Denelle, P., Louarn, M. L., Heremans, S., May, R., Roche, P. & Luque, S. (2022). Assessing the effect of sample bias correction in species distribution models. Ecological Indicators, 145, Article 109487. https://doi.org/10.1016/j.ecolind.2022.109487
Mapelli, F., Barbato, M., Chouaia, B., Riva, V., Daffonchio, D. & Borin, S. (2022). Bacterial community structure and diversity along the halocline of Tyro deep-sea hypersaline anoxic basin. Annals of Microbiology, 72(1), Article 7. https://doi.org/10.1186/s13213-022-01667-7
Nazario, E. C., Cade, D. E., Bierlich, K. C., Czapanskiy, M. F., Goldbogen, J. A., Kahane-Rapport, S. R., van der Hoop, J. M., San Luis, M. T. & Friedlaender, A. S. (2022). Baleen whale inhalation variability revealed using animal-borne video tags. PeerJ, 10, Article e13724. https://doi.org/10.7717/peerj.13724
Videsen, S. K. A. (2022). Behavioral ecology of humpback whales. [PhD thesis, Aarhus University]. Aarhus Universitet.
Koma, Z., Seijmonsbergen, A. C., Grootes, M. W., Nattino, F., Groot, J., Sierdsema, H., Foppen, R. P. B. & Kissling, W. D. (2022). Better together? Assessing different remote sensing products for predicting habitat suitability of wetland birds. Diversity and Distributions, 28(4), 685-699. https://doi.org/10.1111/ddi.13468
Apablaza, H., Solís, M., Conejera, D., Fonseca, A., Cid, J., Tarifeño-Saldivia, E., Valenzuela, S., Emhart, V. & Fernández, M. (2022). bHLH Transcription Factors Undergo Alternative Splicing During Cold Acclimation in a Eucalyptus hybrid. Plant Molecular Biology Reporter, 40(2), 310-326. https://doi.org/10.1007/s11105-021-01313-7
Gomes, A., Christensen, J., Gründger, F., Kjeldsen, K. U., Rysgaard, S. & Vergeynst, L. (2022). Biodegradation of water-accommodated aromatic oil compounds by Arctic marine bacteria. Abstract from XIV Portuguese Conference on Polar Sciences, Faro, Portugal.
Perino, A., Pereira, H. M., Felipe-Lucia, M., Kim, H. J., Kühl, H. S., Marselle, M. R., Meya, J. N., Meyer, C., Navarro, L. M., van Klink, R., Albert, G., Barratt, C. D., Bruelheide, H., Cao, Y., Chamoin, A., Darbi, M., Dornelas, M., Eisenhauer, N., Essl, F. ... Bonn, A. (2022). Biodiversity post-2020: Closing the gap between global targets and national-level implementation. Conservation Letters, 15(2), Article e12848. https://doi.org/10.1111/conl.12848
Møllebjerg, A. & Meyer, R. L. (2022). Biofouling Control in Water Filtration Systems. In Antibiofilm Strategies: Current and Future Applications to Prevent, Control and Eradicate Biofilms (pp. 521–551). Springer. https://doi.org/10.1007/978-3-031-10992-8_20
Kuliński, K., Rehder, G., Asmala, E., Alena Bartosova, A., Carstensen, J., Gustafsson, B. G., Hall, P., Humborg, C., Jilbert, T., Jürgens, K., Meier, H. E. M., Müller-Karulis, B., Naumann, M., Olesen, J. E., Savchuk, O. P., Schramm, A., Slomp, C. P., Sofiev, M., Anna, S. ... Undeman, E. (2022). Biogeochemical functioning of the Baltic Sea. Earth System Dynamics, 13(1), 633-685. https://doi.org/10.5194/esd-13-633-2022
Arranz, P., Christiansen, F., Glarou, M., Gero, S., Visser, F., Oudejans, M. G., Aguilar de Soto, N. & Sprogis, K. (2022). Body Condition and Allometry of Free-Ranging Short-Finned Pilot Whales in the North Atlantic. Sustainability, 14(22), Article 14787. https://doi.org/10.3390/su142214787
Russell, G., Colefax, A., Christiansen, F., Russell, G., Fowler, Z. & Cagnazzi, D. (2022). Body condition and migration timing of east Australian humpback whales. Marine Ecology Progress Series, 692, 169-183. https://doi.org/10.3354/meps14075
Selbach, C., Mouritsen, K. N., Poulin, R., Sures, B. & Smit, N. J. (2022). Bridging the gap: aquatic parasites in the One Health concept. Trends in Parasitology, 38(2), 109-111. https://doi.org/10.1016/j.pt.2021.10.007
Rodríguez-González, P. M., Abraham, E., Aguiar, F., Andreoli, A., Baležentienė, L., Berisha, N., Bernez, I., Bruen, M., Bruno, D., Camporeale, C., Čarni, A., Chilikova-Lubomirova, M., Corenblit, D., Ćušterevska, R., Doody, T., England, J., Evette, A., Francis, R., Garófano-Gómez, V. ... Dufour, S. (2022). Bringing the margin to the focus: 10 challenges for riparian vegetation science and management. Wiley Interdisciplinary Reviews. Water, 9(5), Article e1604. https://doi.org/10.1002/wat2.1604