Publications

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Hvidtjørn, D., Grove, J., Schendel, D., Schieve, L., Sværke, C., Ernst, E. & Thorsen, P. (2011). Risk of Autism Spectrum Disorders in children born after assisted conception. A population based follow-up study. Journal of Epidemiology & Community Health, 65(6), 497-502. https://doi.org/10.1136/jech.2009.093823

Chatwin, H., Holde, K., Yilmaz, Z., Larsen, J. T., Albiñana, C., Vilhjálmsson, B. J., Mortensen, P. B., Thornton, L. M., Bulik, C. M. & Petersen, L. V. (2023). Risk factors for anorexia nervosa: A population-based investigation of sex differences in polygenic risk and early life exposures. International Journal of Eating Disorders, 56(9), 1703-1716. https://doi.org/10.1002/eat.23997

Ørbæk, M., Thorsteinsson, K., Moseholm Larsen, E., Katzenstein, T. L., Storgaard, M., Johansen, I. S., Pedersen, G., Bach, D., Helleberg, M., Weis, N. & Lebech, A. M. (2020). Risk factors during pregnancy and birth-related complications in HIV-positive versus HIV-negative women in Denmark, 2002–2014. HIV Medicine, 21(2), 84-95. https://doi.org/10.1111/hiv.12798

Nathan, N. O., Mørch, L. S., Wu, C. S., Olsen, J., Hetland, M. L., Li, J. & Rom, A. L. (2020). Rheumatoid arthritis and risk of spontaneous abortion: a Danish nationwide cohort study. Rheumatology (Oxford, England), 59(8), 1984-1991. https://doi.org/10.1093/rheumatology/kez565

Czyżewski, S., Søndergaard, S. A., Molnár, Á. P., Kerr, M. R., Kristensen, J. A., Atkinson, J., Trepel, J., Sykut, M., Radzikowski, P., Termansen, S. S., Wałach, K., Pearce, E. A., Pang, S. E. H., Zając, B., Bergman, J., Thomassen, E. S., Mungi, N., Fløjgaard, C., Ejrnæs, R. ... Svenning, J. C. (2026). Revisiting Europe's temperate forests: Palaeoecological evidence for an herbivory-driven woodland-grassland mosaic biome. Biological Conservation, 316, Article 111749. https://doi.org/10.1016/j.biocon.2026.111749

Hein, J. & Wiuf, C. (2002). Review of GR Grant and WJ Ewens, `Statistical Methods in Bioinformatics: An Introduction' In Briefings in Bioinformatics (Vol. 3, pp. 318-319). Springer.

Bailey, M. H., Meyerson, W. U., Dursi, L. J., Wang, L. B., Dong, G., Liang, W. W., Weerasinghe, A., Li, S., Kelso, S., Akbani, R., Anur, P., Bailey, M. H., Buchanan, A., Chiotti, K., Covington, K., Creason, A., Ding, L., MC3 Working Group, PCAWG novel somatic mutation calling methods working group & PCAWG Consortium (2020). Retrospective evaluation of whole exome and genome mutation calls in 746 cancer samples. Nature Communications, 11(1), Article 4748. https://doi.org/10.1038/s41467-020-18151-y

Nexø, B. A., Hansen, B., Nissen, K. K., Gundestrup, L., Terkelsen, T., Villesen, P., Bahrami, S., Petersen, T., Pedersen, F. S. & Laska, M. J. (2013). Restriction genes for retroviruses influence the risk of multiple sclerosis. PLoS One, 8(9), e74063. https://doi.org/10.1371/journal.pone.0074063

Aschard, H., Vilhjálmsson, B. J., Joshi, A. D., Price, A. L. & Kraft, P. (2016). Response to Day et al. American Journal of Human Genetics, 98(2), 394-395. https://doi.org/10.1016/j.ajhg.2015.12.020

Vosegaard, T., Bertelsen, K., Pedersen, J. M., Thøgersen, L., Schiøtt, B., Tajkhorshid, E., Skrydstrup, T. & Nielsen, N. C. (2008). Resolution Enhancement in Solid-State NMR of Oriented Membrane Proteins by Anisotropic Differential Linebroadening. Journal of the American Chemical Society, 130, 5028-5029.

Bertelsen, K., Jensen, B. P., Thøgersen, L., Tajkhorshid, E., Schiøtt, H. B., Skrydstrup, T., Nielsen, N. C. & Vosegaard, T. (2009). Residue-Specific Information about the Dynamics of Antimicrobial Peptides from ¹H−¹⁵N and ²H Solid-State NMR Spectroscopy. Journal of the American Chemical Society, 131(51), 18335–18342. https://doi.org/10.1021/ja908604u

TRACERx Consortium (2024). Representation of genomic intratumor heterogeneity in multi-region non-small cell lung cancer patient-derived xenograft models. Nature Communications, 15(1), Article 4653. https://doi.org/10.1038/s41467-024-47547-3

Østergaard, S. D. & Foldager, L. (2011). Reply. Acta Psychiatrica Scandinavica, 124(1), 75-6. https://doi.org/10.1111/j.1600-0447.2011.01694.x

Nocchi, G., Sendrowski, J., Shi, A., Boufford, B., Lamothe, M., Isabel, N. & Yeaman, S. (2026). Replicated hybrid zones reveal genomic patterns of local adaptation and introgression in spruce. Molecular Biology and Evolution, 43(4), Article msag074. https://doi.org/10.1093/molbev/msag074

Castric, V., Bechsgaard, J., Schierup, M. H. & Vekemans, X. (2008). Repeated adaptive introgression at a gene under multiallelic balancing selection. PLoS Genetics, 4(8), e1000168. https://doi.org/10.1371/journal.pgen.1000168

Richman, A. D., Herrera, L. G., Nash, D. & Schierup, M. H. (2003). Relative roles of mutation and recombination in generating allelic polymorphism at an MHC class II locus in Peromyscus maniculatus. Genetetical Research, Camb, 82, 89-99.

Wathes, D. C., Cheng, Z., Salavati, M., Buggiotti, L., Takeda, H., Tang, L., Becker, F., Ingvartsen, K. L., Ferris, C. P., Hostens, M., Crowe, M. A. & GplusE Consortium (2021). Relationships between metabolic profiles and gene expression in liver and leukocytes of dairy cows in early lactation. Journal of Dairy Science, 104(3), 3596-3616. https://doi.org/10.3168/jds.2020-19165

Coutant, M. P., Malmkvist, J., Foldager, L. & Herskin, M. S. (2023). Relationship among indicators of pain and stress in response to piglet surgical castration: an exploratory analysis. Journal of Veterinary Behavior, 67, 20-32. https://doi.org/10.1016/j.jveb.2023.07.001

Autzen, H. E., Siuda, I., Sonntag, Y., Nissen, P., Møller, J. V. & Thøgersen, L. (2015). Regulation of the Ca(2+)-ATPase by cholesterol: A specific or non-specific effect? Molecular Membrane Biology, 32(3), 75-87. https://doi.org/10.3109/09687688.2015.1073382

Nielsen, M. M., Tataru, P., Madsen, T., Hobolth, A. & Pedersen, J. S. (2018). Regmex: A statistical tool for exploring motifs in ranked sequence lists from genomics experiments. Algorithms for Molecular Biology, 13(1), Article 17. https://doi.org/10.1186/s13015-018-0135-2

Norager, N. H., Olsen, M. H., Pedersen, S. H., Riedel, C. S., Czosnyka, M. & Juhler, M. (2021). Reference values for intracranial pressure and lumbar cerebrospinal fluid pressure: a systematic review. Fluids and Barriers of the CNS, 18(1), Article 19. https://doi.org/10.1186/s12987-021-00253-4

Jensen, J. M. (2017). Reference free phasing and representation of complex variation.

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.

Mailund , Brodal, G. S., Fagerberg, R., Pedersen, C. N. S. & Phillips, D. (2006). Recrafting the Neighbor-Joining Method. BMC Bioinformatics, 7(29).

Gruening, B., Sallou, O., Moreno, P., da Veiga Leprevost, F., Ménager, H., Søndergaard, D., Röst, H., Sachsenberg, T., O'connor, B., Madeira, F., Del Angel, V. D., Crusoe, M. R., Varma, S., Blankenberg, D., Jimenez, R. C., BioContainers Community & Perez-Riverol, Y. (2019). Recommendations for the packaging and containerizing of bioinformatics software: [version 2; peer review: 2 approved, 1 approved with reservations]. F1000Research, 7, Article 742. https://doi.org/10.12688/f1000research.15140.2

Kristensen, T. G. (2009). Recombining Angles in Differential Evolution. In IEEE Congress on Evolutionary Computation, CEC 2009 (pp. 3353 - 3356). IEEE Press. https://doi.org/10.1109/CEC.2009.4983370

Wiuf, C. (2001). Recombination in human mitochondrial DNA? Genetics, 159, 749-756.

Boesen, I. Z., Søgaard, T., Mygind, T., Melkova, R., Birkelund, S., Schierup, M. H. & Christiansen, G. (2002). Recombination in Mycoplasma hominis. Infection, Genetics and Evolution, 1, 277-285. http://www.elsevier.com/locate/meegid

Cavassim, M. I. A., Andersen, S. U., Bataillon, T. & Schierup, M. H. (2021). Recombination facilitates adaptive evolution in rhizobial soil bacteria. Molecular Biology and Evolution, 38(12), 5480-5490. https://doi.org/10.1093/molbev/msab247

Schierup, M. H., nullA.M., M. & Hein, J. (2001). Recombination, Balancing Selection and Phylogenies in MHC and Self-Incompatibility Genes. Genetics, 159, 1833-1844.

Wiuf, C. & Hein, J. (1999). Recombination as a Point Process along Sequences. Theoretical Population Biology, 55(3), 248-259. https://doi.org/10.1006/tpbi.1998.1403

Schierup, M. H. & Forsberg, R. (2003). Recombination and phylogenetic analysis of HIV-1. Paper presented at Atti dei Convegni Lincei - Tavola rotonda nell'ambito della Conferenza annuale della Ricerca, Roma 28-29 settember, 2001.

Cavassim, M. I. A. (2020). Recombination and horizontal gene transfer through the lens of phylogenomics. [PhD dissertation, Aarhus University]. Aarhus Universitet.

Strimmer, K., Wiuf, C. & Moulton, V. (2001). Recombination analysis using directed graphical models. Mol. Biol. Evol., 18, 97-99.

Gilbert, MTP., Binladen, J., Miller, W., Wiuf, C., Willerslev, E., Poinar, H., Carlson, JE., Leebens-Mack, JH. & Schuster, SC. (2007). Recharacterisation of ancient DNA miscoding lesions: Insights in the era of the sequencing-by-synthesis. Nucleic Acids Research, 35(1), 1-10. https://doi.org/10.1093/nar/gkl483

Guo, Y.-L., Bechsgaard, J. S., Slotte, T., Neuffer, B., Lascoux, M., Weigel, D. & Schierup, M. H. (2009). Recent speciation of Capsella rubella from Capsella grandiflora, associated with loss of self-incompatibility and an extreme bottleneck. Proceedings of the National Academy of Sciences (PNAS), 106(13), 5246-51. https://doi.org/10.1073/pnas.0808012106

Athanasiadis, G. (2017). Recent migration and sample representativeness in a Danish genetic study. Annals of Human Biology, 44(5), 484-486. https://doi.org/10.1080/03014460.2017.1336253

Besenbacher, S., Mailund, Westh-Nielsen, L. & Pedersen, C. N. S. (2005). RBT—A Tool for Building Refined Buneman Trees. Bioinformatics, 21(8), 1711-1712.

Besenbacher, S., Mailund, T., Westh-Nielsen, L. & Pedersen, C. S. (2004). RBT -- A tool for building refined Buneman trees. Bioinformatics, doi:10.1093/bti195, in press.

Leppälä, K., Matala-aho, T. & Törmä, T. (2017). Rational approximations of the exponential function at rational points. Journal of Number Theory, 179, 220-239. https://doi.org/10.1016/j.jnt.2017.03.014

Perfeito, L., Sousa, A., Bataillon, T. & Gordo, I. (2014). Rates of fitness decline and rebound suggest pervasive epistasis. Evolution, 68(1), 150-162. https://doi.org/10.1111/evo.12234

Zhang, C., Reid, K., Schierup, M. H., Wang, H., Candolin, U. & Merilä, J. (2025). Rate of de novo mutations in the three-spined stickleback. Heredity, 134(7), 387-395. https://doi.org/10.1038/s41437-025-00767-9

Kong, A., Frigge, M. L., Masson, G., Besenbacher, S., Sulem, P., Magnusson, G., Gudjonsson, S. A., Sigurdsson, A., Jonasdottir, A., Jonasdottir, A., Wong, W. S. W., Sigurdsson, G., Walters, G. B., Steinberg, S., Helgason, H., Thorleifsson, G., Gudbjartsson, D. F., Helgason, A., Magnusson, O. T. ... Stefansson, K. (2012). Rate of de novo mutations and the importance of father's age to disease risk. Nature, 488(7412), 471-5. https://doi.org/10.1038/nature11396

Singh, T., Poterba, T., Curtis, D., Akil, H., Al Eissa, M., Barchas, J. D., Bass, N., Bigdeli, T. B., Breen, G., Bromet, E. J., Buckley, P. F., Bunney, W. E., Bybjerg-Grauholm, J., Byerley, W. F., Chapman, S. B., Chen, W. J., Churchhouse, C., Craddock, N., Cusick, C. M. ... Daly, M. J. (2022). Rare coding variants in ten genes confer substantial risk for schizophrenia. Nature, 604(7906), 509-516. https://doi.org/10.1038/s41586-022-04556-w

Wiuf, C. (2001). Rare Alleles and Selection. Theoretical Population Biology, 59(4), 287-296. https://doi.org/10.1006/tpbi.2001.1523

Simonsen, M., Mailund, T. & Pedersen, C. S. (2008). Rapid Neighbour-Joining. In Proceedings of the 8th International Workshop on Algorithms in Bioinformatics (WABI) (pp. 113-122)

Draghi, A., Chamberlain, C. A., Khan, S., Papp, K., Lauss, M., Soraggi, S., Radic, H. D., Presti, M., Harbst, K., Gokuldass, A., Kverneland, A., Nielsen, M., Westergaard, M. C. W., Andersen, M. H., Csabai, I., Jönsson, G., Szallasi, Z., Svane, I. M. & Donia, M. (2021). Rapid Identification of the Tumor-Specific Reactive TIL Repertoire via Combined Detection of CD137, TNF, and IFNγ, Following Recognition of Autologous Tumor-Antigens. Frontiers in Immunology, 12, Article 705422. https://doi.org/10.3389/fimmu.2021.705422

Simonsen, M. & Pedersen, C. N. S. (2011). Rapid Computation of Distance Estimators from Nucleotide and Amino Acid Alignments. In Proceedings of the 26th Annual ACM Symposium on Applied Computing Association for Computing Machinery.

Foldager, L. & GplusE Consortium (2017). Random forests prediction of blood metabolic clusters by milk metabolites and enzymes in dairy cows. In Book of Abstracts of the 68th Annual Meeting of the European Federation of Animal Science (pp. 402-402). Wageningen Academic Publishers. https://doi.org/10.3920/978-90-8686-859-9

Mailund & Pedersen, C. N. S. (2004). QuickJoin—Fast Neighbour-Joining Tree Reconstruction. Bioinformatics, 20(17), 3261-3262.

Displaying results 301 to 350 out of 1410

Revised 13.01.2026

Palle Villesen