Department of Biology

 

 
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  1. 2024
  2. Published

    Predicting peptide–MHC stability and immunogenicity with deep learning

    Prachar, Marek, 2024, Department of Biology, Faculty of Science, University of Copenhagen. 258 p.

    Research output: Book/Report › Ph.D. thesis › Research

  3. Published

    Properties of vertebrate predator–prey networks in the high Arctic

    Abrham, M., Norén, K., Bartolomé Filella, J., Angerbjörn, A., Lecomte, N., Chrzanová Pecnerová, Patrícia, Freire, S. & Dalerum, F., 2024, In: Ecology and Evolution. 14, 6, 13 p., e11470.

    Research output: Contribution to journal › Journal article › Research › peer-review

  4. Published

    Protein kinase C-inhibition reduces critical weight loss and improves functional outcome after experimental subarachnoid haemorrhage

    Bömers, J. P., Holm, A., Kazantzi, Spyridoula, Edvinsson, L., Mathiesen, Tiit Illimar & Haanes, Kristian Agmund, 2024, In: Journal of Stroke and Cerebrovascular Diseases. 33, 7, 11 p., 107728.

    Research output: Contribution to journal › Journal article › Research › peer-review

  5. Published

    Protein variant effect prediction using machine learning

    Blaabjerg, Lasse Møller, 2024, Department of Biology, Faculty of Science, University of Copenhagen. 164 p.

    Research output: Book/Report › Ph.D. thesis › Research

  6. Published

    Protocol for genomic recombineering in Yersinia ruckeri using CRISPR Cas12a coupled with the λ Red system

    Ejaz, Rooshanie Nadia, Taylor, Nicholas M I & Rebrova, Eva Maria, 2024, In: STAR Protocols. 5, 2, 17 p., 103014.

    Research output: Contribution to journal › Journal article › Research › peer-review

  7. Published

    Pulmonary maternal immune activation does not cross the placenta but leads to fetal metabolic adaptation

    Hansen, Signe Schmidt Kjølner, Krautz, Robert, Rago, D., Havelund, J., Stigliani, Arnaud, Færgeman, N. J., Prézelin, A., Rivière, J., Couturier-Tarrade, A., Akimov, V., Blagoev, B., Elfving, B., Neess, D., Vogel, U., Khodosevich, Konstantin, Hougaard, Karin Sørig & Sandelin, Albin Gustav, 2024, In: Nature Communications. 15, 24 p., 4711.

    Research output: Contribution to journal › Journal article › Research › peer-review

  8. Published

    Reading tea leaves worldwide: Decoupled drivers of initial litter decomposition mass-loss rate and stabilization

    Sarneel, J. M., Hefting, M. M., Sandén, T., van den Hoogen, J., Routh, D., Adhikari, B. S., Alatalo, J. M., Aleksanyan, A., Althuizen, I. H. J., Alsafran, M. H. S. A., Atkins, J. W., Augusto, L., Aurela, M., Azarov, A. V., Barrio, I. C., Beier, C., Bejarano, M. D., Benham, S. E., Berg, B., Bezler, N. V. & 88 others, Björnsdóttir, K., Bolinder, M. A., Carbognani, M., Cazzolla Gatti, R., Chelli, S., Chistotin, M. V., Christiansen, C. T., Courtois, P., Crowther, T. W., Dechoum, M. S., Djukic, I., Duddigan, S., Egerton-Warburton, L. M., Fanin, N., Fantappiè, M., Fares, S., Fernandes, G. W., Filippova, N. V., Fliessbach, A., Fuentes, D., Godoy, R., Grünwald, T., Guzmán, G., Hawes, J. E., He, Y., Hero, J. M., Hess, L. L., Hogendoorn, K., Høye, T. T., Jans, W. W. P., Jónsdóttir, I. S., Keller, S., Kepfer Rojas, Sebastian, Kuz'menko, N. N., Larsen, Klaus Steenberg, Laudon, H., Lembrechts, J. J., Li, J., Limousin, J. M., Lukin, S. M., Marques, R., Marín, C., McDaniel, M. D., Meek, Q., Merzlaya, G. E., Michelsen, Anders, Montagnani, L., Mueller, P., Murugan, R., Myers-Smith, I. H., Nolte, S., Ochoa-Hueso, R., Okafor, B. N., Okorkov, V. V., Onipchenko, V. G., Orozco, M. C., Parkhurst, T., Peres, C. A., Petit Bon, M., Petraglia, A., Pingel, M., Rebmann, C., Scheffers, B. R., Schmidt, Inger Kappel, Scholes, M. C., Sheffer, E., Shevtsova, L. K., Smith, S. W., Sofo, A., Stevenson, P. R., Strouhalová, B., Sundsdal, A., Sühs, R. B., Tamene, G., Thomas, H. J. D., Tolunay, D., Tomaselli, M., Tresch, S., Tucker, D. L., Ulyshen, M. D., Valdecantos, A., Vandvik, V., Vanguelova, E. I., Verheyen, K., Wang, X., Yahdjian, L., Yumashev, X. S. & Keuskamp, J. A., 2024, In: Ecology Letters. 27, 5, 14 p., e14415.

    Research output: Contribution to journal › Letter › Research › peer-review

  9. Published

    Recent progress in understanding the cellular and genetic basis of plant responses to low oxygen holds promise for developing flood-resilient crops

    Fagerstedt, K. V., Pucciariello, C., Pedersen, Ole & Perata, P., 2024, In: Journal of Experimental Botany. 75, 5, p. 1217–1233 17 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  10. Published

    Recommendations for Bioinformatic Tools in lncRNA Research

    Distefano, R., Ilieva, M., Rennie, Sarah & Uchida, S., 2024, In: Current Bioinformatics. 19, 1, p. 14-20 7 p.

    Research output: Contribution to journal › Review › Research › peer-review

  11. Published

    Reconstructing colonization dynamics to establish how human activities transformed island biodiversity

    Tomlinson, S., Lomolino, M. V., Anderson, A., Austin, J. J., Brown, S. C., Haythorne, S., Perry, G. L. W., Wilmshurst, J. M., Wood, J. R. & Fordham, D. A., 2024, In: Scientific Reports. 14, 1, 13 p., 5261.

    Research output: Contribution to journal › Journal article › Research › peer-review

  12. Published

    Regional impacts of warming on biodiversity and biomass in high latitude stream ecosystems across the Northern Hemisphere

    Jackson, M. C., Friberg, N., Moliner Cachazo, L., Clark, D. R., Mutinova, P. T., O’Gorman, E. J., Kordas, R. L., Gallo, B., Pichler, D. E., Bespalaya, Y., Aksenova, O. V., Milner, A., Brooks, S. J., Dunn, N., Lee, K. W. K., Ólafsson, J. S., Gíslason, G. M., Millan, L., Bell, T., Dumbrell, A. J. & 1 others, Woodward, G., 2024, In: Communications Biology . 7, 1, 8 p., 316.

    Research output: Contribution to journal › Journal article › Research › peer-review

  13. Published

    Regulation of polycystin-2 trafficking to and at the primary cilium in kidney epithelial cells

    Rezi, Csenge Kata, 2024, Department of Biology, Faculty of Science, University of Copenhagen. 188 p.

    Research output: Book/Report › Ph.D. thesis › Research

  14. Published

    Regulatory sequence-based discovery of anti-defense genes in archaeal viruses

    Bhoobalan, Yuvaraj, Xu, Shuanshuan, Martinez Alvarez, Laura, Karamycheva, S., Makarova, K. S., Koonin, E. V. & Peng, Xu, 2024, In: Nature Communications. 15, 1, 13 p., 3699.

    Research output: Contribution to journal › Journal article › Research › peer-review

  15. Published

    Relationship between the female cervico-vaginal microbiome and women’s health

    Chen, Chen, 2024, Department of Biology, Faculty of Science, University of Copenhagen. 141 p.

    Research output: Book/Report › Ph.D. thesis › Research

  16. Published

    Removal from the wild endangers the once widespread long-tailed macaque

    Gamalo, L. E., Ilham, K., Jones-Engel, L., Gill, M., Sweet, R., Aldrich, B., Phiapalath, P., Van Bang, T., Ahmed, T., Kite, S., Paramasivam, S., Seiha, H., Zainol, M. Z., Nielsen, D. R. K., Ruppert, N., Fuentes, A. & Hansen, Malene Friis, 2024, In: American Journal of Primatology. 86, 3, 10 p., e23547.

    Research output: Contribution to journal › Comment/debate › Research › peer-review

  17. Published

    Response of underwater photosynthesis to light, CO2, temperature, and submergence time of Taxodium distichum, a flood-tolerant tree

    Guo, J., Xue, J., Yin, Y., Pedersen, Ole & Hua, J., 2024, In: Frontiers in Plant Science. 15, 13 p., 1355729.

    Research output: Contribution to journal › Journal article › Research › peer-review

  18. Published

    Retron-Eco1 assembles NAD+-hydrolyzing filaments that provide immunity against bacteriophages

    Carabias del Rey, Arturo, Camara, Sarah, Rodríguez Mestre, Mario, Lopéz-Méndez, B., Hendriks, Ivo Alexander, Zhao, Ruiliang, Pape, Tillmann Hanns, Fuglsang, Anders, Luk, S. H. C., Nielsen, Michael Lund, Pinilla Redondo, Rafael & Montoya, Guillermo, 2024, In: Molecular Cell. 84, 11, p. 2185-2202.e12 31 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  19. Published

    Root acclimations to soil flooding prime rice (Oryza sativa L.) for subsequent conditions of water deficit

    Peralta Ogorek, Lucas León, Song, Zhiwei, Pellegrini, Elisa, Liu, Fulai, Tomasella, M., Nardini, A. & Pedersen, Ole, 2024, In: Plant and Soil. 494, p. 529-546 18 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  20. Published

    Seafloor primary production in a changing Arctic Ocean

    Attard, K., Singh, R. K., Gattuso, J. P., Filbee-Dexter, K., Krause-Jensen, D., Kühl, Michael, Sejr, M. K., Archambault, P., Babin, M., Bélanger, S., Berg, P., Glud, R. N., Hancke, K., Jänicke, S., Qin, J., Rysgaard, S., Sørensen, E. B., Tachon, F., Wenzhöfer, F. & Ardyna, M., 2024, In: Proceedings of the National Academy of Sciences of the United States of America. 121, 11, 10 p., e2303366121.

    Research output: Contribution to journal › Journal article › Research › peer-review

  21. Published

    Seagrass-mediated rhizosphere redox gradients are linked with ammonium accumulation driven by diazotrophs

    Brodersen, Kasper Elgetti, Moßhammer, Maria, Bittner, Meriel Jennifer, Hallstrøm, S., Santner, J., Riemann, Lasse & Kühl, Michael, 2024, In: Microbiology Spectrum. 12, 4, 20 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  22. Published

    Short- and long-term plant and microbial uptake of 15N-labelled urea in a mesic tundra heath, West Greenland

    Barthelemy, H., Nobel, L. A., Stark, S., Väisänen, M., Olofsson, J. & Michelsen, Anders, 2024, In: Polar Biology. 47, p. 1-15 15 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  23. Published

    Short-term fate of nitrogen fixed by moss-cyanobacteria associations under different rainfall regimes

    Guo, S., Avila Clasen, Lina & Rousk, Kathrin, 2024, In: Basic and Applied Ecology. 79, p. 9-16 8 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  24. Published

    Spatial chromatin accessibility sequencing resolves high-order spatial interactions of epigenomic markers

    Xie, Y., Ruan, F., Li, Y., Luo, M., Zhang, C., Chen, Z., Xie, Z., Weng, Z., Chen, W., Chen, W., Fang, Y., Sun, Y., Guo, M., Wang, J., Xu, S., Wang, H. & Tang, C., 2024, In: eLife. 12, 20 p., RP87868.

    Research output: Contribution to journal › Journal article › Research › peer-review

  25. Published

    Spatially resolved analysis of microenvironmental gradient impact on cancer cell phenotypes

    Auxillos, Jamie Yam, Crouigneau, R., Li, Y. F., Dai, Yifan, Stigliani, Arnaud, Tavernaro, I., Resch-Genger, U., Sandelin, Albin Gustav, Marie, R. & Pedersen, Stine Helene Falsig, 2024, In: Science Advances. 10, 18, 17 p., eadn3448.

    Research output: Contribution to journal › Journal article › Research › peer-review

  26. Published

    Strong individual distinctiveness across the vocal repertoire of a colonial seabird, the little auk, Alle alle

    Osiecka, A. N., Briefer, Elodie, Kidawa, D. & Wojczulanis-Jakubas, K., 2024, In: Animal Behaviour. 210, p. 199-211 13 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

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