Publications

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Wang, J., Zhang, J., Li, R., Zheng, H., Li, J., Zhang, Y., Li, H., Ni, P., Li, S., Li, S., Wang, J., Liu, D., McDermott, J., Samudrala, R., Liu, S., Wang, J., Yang, H., Yu, J. & Wong, G. K.-S. (2010). Evolutionary transients in the rice transcriptome. Genomics Proteomics & Bioinformatics, 8(4), 211-28. https://doi.org/10.1016/S1672-0229(10)60023-X

Penn, O., Stern, A., Rubinstein, N. D., Dutheil, J., Bacharach, E., Galtier, N. & Pupko, T. (2008). Evolutionary modeling of rate shifts reveals specificity determinants in HIV-1 subtypes. PLoS Computational Biology, 4(11), e1000214. https://doi.org/10.1371/journal.pcbi.1000214

Waldvogel, A. M., Feldmeyer, B., Rolshausen, G., Exposito-Alonso, M., Rellstab, C., Kofler, R., Mock, T., Schmid, K., Schmitt, I., Bataillon, T., Savolainen, O., Bergland, A., Flatt, T., Guillaume, F. & Pfenninger, M. (2020). Evolutionary genomics can improve prediction of species’ responses to climate change. Evolution Letters, 4(1), 4-18. https://doi.org/10.1002/evl3.154

Hartfield, M. (2016). Evolutionary genetic consequences of facultative sex and outcrossing. Journal of Evolutionary Biology, 29(1), 5-22. https://doi.org/10.1111/jeb.12770

Bergman, J. & Schierup, M. H. (2022). Evolutionary dynamics of pseudoautosomal region 1 in humans and great apes. Genome Biology, 23, Article 215. https://doi.org/10.1186/s13059-022-02784-x

Birkbak, N. J., TRACERx Consortium, TRACERx EVO Consortium & PEACE Consortium (2026). Evolutionary characterization of lung cancer metastasis. Nature, 653(8115), 911-922. https://doi.org/10.1038/s41586-026-10428-4

Karasaki, T., Moore, D. A., Veeriah, S., Naceur-Lombardelli, C., Toncheva, A., Magno, N., Ward, S., Bakir, M. A., Watkins, T. B. K., Grigoriadis, K., Huebner, A., Hill, M. S., Frankell, A. M., Abbosh, C., Puttick, C., Zhai, H., Gimeno-Valiente, F., Saghafinia, S., Kanu, N. ... TRACERx Consortium (2023). Evolutionary characterization of lung adenocarcinoma morphology in TRACERx. Nature Medicine, 29(4), 833-845. https://doi.org/10.1038/s41591-023-02230-w

Bataillon, T. & Ronfort, J. (2007). Evolutionary and Ecological Genetics of Medicago truncatula. In The Medicago Handbook [On line] http://www.noble.org/MedicagoHandbook/pdf/EvolutionaryEcologicalGenetics.pdf

Yang, C., Zhou, Y., Marcus, S., Formenti, G., Bergeron, L. A., Song, Z., Bi, X., Bergman, J., Rousselle, M. M. C., Zhou, C., Zhou, L., Deng, Y., Fang, M., Xie, D., Zhu, Y., Tan, S., Mountcastle, J., Haase, B., Balacco, J. ... Zhang, G. (2021). Evolutionary and biomedical insights from a marmoset diploid genome assembly. Nature, 594(7862), 227-233. https://doi.org/10.1038/s41586-021-03535-x

Lohmann, G. V., Shimoda, Y., Nielsen, M. W., Jørgensen, F. G., Grossmann, C., Sandal, N., Sørensen, K., Thirup, S., Madsen, L. H., Tabata, S., Sato, S., Stougaard, J. & Radutoiu, S. (2010). Evolution and regulation of the Lotus japonicus LysM receptor gene family. Molecular plant-microbe interactions, 23(4), 510-21. https://doi.org/10.1094/MPMI-23-4-0510

Christiansen, F. & Loeschcke, V. (1980). Evolution and intraspecific exploitative competition I. One-locus theory for small additive gene effects. Theoretical Population Biology, 18, 297–313.

Christiansen, F. (1987). Evolution and intraspecific exploitative competition III. One-locus theory for small additive gene effects and multidimensional resource qualities. Theoretical Population Biology, 31, 33-46.

Loeschcke, V. & Christiansen, F. (1984). Evolution and intraspecific exploitative competition II. A two locus model for additive gene effects. Theoretical Population Biology, 26, 228–264.

Christiansen, F. B. (2008). Evolutionær tilpasning. Matilde, (38), 16-19.

Nam, K., Munch, K., Mailund, T., Nater, A., Greminger, M. P., Krützen, M., Marquès-Bonet, T. & Schierup, M. H. (2017). Evidence that the rate of strong selective sweeps increases with population size in the great apes. Proceedings of the National Academy of Sciences (PNAS), 114(7), 1613-1618. https://doi.org/10.1073/pnas.1605660114

Schierup, M. H., Mordhorst, CH., Müller, CP. & Christensen, LS. (2005). Evidence of recombination among early-vaccination era measles virus strains. BMC Evolutionary Biology, 5(52).

Foo, J. C., Streit, F., Frank, J., Treutlein, J., Baune, B. T., Moebus, S., Joeckel, K.-H., Forstner, A. J., Noethen, M. M., Rietschel, M., Sartorius, A., Kranaster, L. & Major Depressive Disorder Working Group of the Psychiatric Genomics Consortium (Jakob Grove, member of -) (2019). Evidence for increased genetic risk load for major depression in patients assigned to electroconvulsive therapy. American Journal of Medical Genetics. Part B: Neuropsychiatric Genetics, 180(1), 35-45. https://doi.org/10.1002/ajmg.b.32700

Bechsgaard, J., Schou, M. F., Vanthournout, B., Hendrickx, F., Knudsen, B., Settepani, V., Schierup, M. H. & Bilde, T. (2019). Evidence for Faster X Chromosome Evolution in Spiders. Molecular Biology and Evolution, 36(6), 1281-1293. https://doi.org/10.1093/molbev/msz074

Bechsgaard, J., Jorgensen, T. H. & Schierup, M. H. (2017). Evidence for Adaptive Introgression of Disease Resistance Genes Among Closely Related Arabidopsis Species. G3 Genes/Genomes/Genetics, 7(8), 2677-2683. https://doi.org/10.1534/g3.117.043984

Schendel, D., Munk Laursen, T., Albiñana, C., Vilhjalmsson, B., Ladd-Acosta, C., Fallin, M. D., Benke, K., Lee, B., Grove, J., Kalkbrenner, A., Ejlskov, L., Hougaard, D., Bybjerg-Grauholm, J., Baekvad-Hansen, M., Børglum, A. D., Werge, T., Nordentoft, M., Mortensen, P. B. & Agerbo, E. (2022). Evaluating the interrelations between the autism polygenic score and psychiatric family history in risk for autism. Autism Research, 15(1), 171-182. https://doi.org/10.1002/aur.2629

Sükösd, Z., Swenson, M. S., Kjems, J. & Heitsch, C. E. (2013). Evaluating the accuracy of SHAPE-directed RNA secondary structure predictions. Nucleic Acids Research, 41(5), 2807-2816. https://doi.org/10.1093/nar/gks1283

Hebsgaard, MB., Wiuf, C., Gilbert, MTP., Glenner, H. & Willerslev, E. (2007). Evaluating Neandertal genetics and phylogeny. J. Mol. Evol., 64, 50-60. https://doi.org/10.1007/s00239-006-0017-y

Soraggi, S., Riera Belles, M., Rajpert-De Meyts, E., Schierup, M. H. & Almstrup, K. (2021). Evaluating genetic causes of azoospermia: What can we learn from a complex cellular structure and single-cell transcriptomics of the human testis? Human Genetics, 140(1), 183-201. https://doi.org/10.1007/s00439-020-02116-8

Lin, Y., Rasmussen, M. H., Christensen, M. H., Frydendahl, A., Maretty, L., Andersen, C. L. & Besenbacher, S. (2024). Evaluating Bioinformatics Processing of Somatic Variant Detection in cfDNA Using Targeted Sequencing with UMIs. International Journal of Molecular Sciences , 25(21), Article 11439. https://doi.org/10.3390/ijms252111439

Speed, D., Holmes, J. & Balding, D. J. (2020). Evaluating and improving heritability models using summary statistics. Nature Genetics, 52(4), 458-462. https://doi.org/10.1038/s41588-020-0600-y

Rafnar, T., Vermeulen, S. H., Sulem, P., Thorleifsson, G., Aben, K. K., Witjes, J. A., Grotenhuis, A. J., Verhaegh, G. W., Hulsbergen-van de Kaa, C. A., Besenbacher, S., Gudbjartsson, D., Stacey, S. N., Gudmundsson, J., Johannsdottir, H., Bjarnason, H., Zanon, C., Helgadottir, H., Jonasson, J. G., Tryggvadottir, L. ... Kiemeney, L. A. (2011). European genome-wide association study identifies SLC14A1 as a new urinary bladder cancer susceptibility gene. Human Molecular Genetics, 20(21), 4268-4281. https://doi.org/10.1093/hmg/ddr303

Wang, K., Li, J., Li, S., Bolund, L. & Wiuf, C. (2009). Estimation of tumor heterogeneity using CGH array data. BMC Bioinformatics, 10(1), 12. https://doi.org/10.1186/1471-2105-10-12

Jimenez Mena, B. (2016). Estimation of the effective population size (Ne) and its application in the management of small populations.

Bataillon, T. (2000). Estimation of spontaneous genome-wide mutation rate parameters: whither beneficial mutations? Heredity, 84 ( Pt 5), 497-501. https://doi.org/10.1046/j.1365-2540.2000.00727.x

Barker, J. S. F., East, P. D. & Christiansen, F. (1989). Estimation of migration from a perturbation experiment in natural populations of Drosophila buzzatii Patterson & Wheeler. Biological Journal of the Linnean Society, 37, 311-334.

Chen, Y., Vanderick, S., Mota, R. R., Grelet, C., GplusE Consortium & Gengler, N. (2021). Estimation of genetic parameters for predicted nitrogen use efficiency and losses in early lactation of Holstein cows. Journal of Dairy Science, 104(4), 4413-4423. https://doi.org/10.3168/jds.2020-18849

Stumpf, M. PH., Thorne, T., Silva, E., Stewart, R., An, HJ., Lappe, M. & Wiuf, C. H. (2008). Estimating the size of the human interactome. Proceedings of the National Academy of Sciences (PNAS), 105, 6059.

Mable, B. K., Schierup, M. H. & Charlesworth, D. (2003). Estimating the number, frequency, and dominance of S-alleles in a natural population of Arabidopsis lyrata (Brassicaceae) with sporophytic control of self-incompatibility. Heredity, 90, 422-431. http://www.nature.com/hdy

Athanasiadis, G., Speed, D., Andersen, M. K., Appel, E. V. R., Grarup, N., Brandslund, I., Jørgensen, M. E., Larsen, C. V. L., Bjerregaard, P., Hansen, T. & Albrechtsen, A. (2020). Estimating narrow-sense heritability using family data from admixed populations. Heredity, 124(6), 751-762. https://doi.org/10.1038/s41437-020-0311-2

Charmouh, A. P., Porsborg, P. S., Hansen, L. T., Besenbacher, S., Boeg Winge, S., Almstrup, K., Hobolth, A., Bataillon, T. & Schierup, M. H. (2025). Estimating Gene Conversion Tract Length and Rate From PacBio HiFi Data. Molecular Biology and Evolution, 42(2), Article msaf019. https://doi.org/10.1093/molbev/msaf019

Mailund, T., Dutheil, J., Hobolth, A., Lunter, G. & Schierup, M. H. (2011). Estimating Divergence Time and Ancestral Effective Population Size of Bornean and Sumatran Orangutan Subspecies Using a Coalescent Hidden Markov Model. PLoS Genetics, 7(3). https://doi.org/10.1371/journal.pgen.1001319

Nexø, B. A., Laska, M. J., Christensen, T., Møller-Larsen, A., Pedersen, F. S. & Villesen, P. (2010). Estimating disease risk of individual having/developing multiple sclerosis involves in genetic material sample from individual, assessing sequence polymorphism in specific genetic regions of human chromosome, obtaining and estimating step. (Patent No. WO2010112033).

Frydendahl, A., Rasmussen, M. H., Jensen, S. Ø., Henriksen, T. V., Demuth, C., Diekema, M., Ditzel, H. J., Wen, S. W. C., Pedersen, J. S., Dyrskjøt, L. & Andersen, C. L. (2024). Error-Corrected Deep Targeted Sequencing of Circulating Cell-Free DNA from Colorectal Cancer Patients for Sensitive Detection of Circulating Tumor DNA. International Journal of Molecular Sciences , 25(8), Article 4252. https://doi.org/10.3390/ijms25084252

Rheinbay, E., Nielsen, M. M., Abascal, F., Wala, J. A., Shapira, O., Tiao, G., Hornshøj, H., Hess, J. M., Juul, R. I., Lin, Z., Feuerbach, L., Sabarinathan, R., Madsen, T., Kim, J., Mularoni, L., Shuai, S., Lanzós, A., Herrmann, C., Maruvka, Y. E. ... PCAWG Drivers and Functional Interpretation Working Group (2023). Erratum: Author Correction: Analyses of non-coding somatic drivers in 2,658 cancer whole genomes (Nature (2020) 578 7793 (102-111)). Nature, 614(7948), E40. https://doi.org/10.1038/s41586-022-05599-9

Szalay, P. G., Thøgersen, L. S., Olsen, J., Kállay, M. & Gauss, J. (2004). Equilibrium Geometry of the Ethynyl (CCH) Radical. Journal of Physical Chemistry Part A: Molecules, Spectroscopy, Kinetics, Environment and General Theory, 108, 3030-3034.

Christiansen, F. (1988). Epistasis in the multiple locus symmetric viability model. Journal of Mathematical Biology, 26, 595-618.

Blanquart, F. & Bataillon, T. (2016). Epistasis and the Structure of Fitness Landscapes: Are Experimental Fitness Landscapes Compatible with Fisher's Geometric Model? Genetics, 203(2), 847-862. https://doi.org/10.1534/genetics.115.182691

Furrow, R. E., Christiansen, F. B. & Feldman, M. W. (2014). Epigenetic variation, phenotypic heritability, and evolution. In A. Naumova & C. Greenwood (Eds.), Epigenetics and Complex Traits (pp. 233-246). Springer. https://doi.org/10.1007/978-1-4614-8078-5_1

Rasmussen, M. Q., Tindbæk, G., Nielsen, M. M., Merrild, C., Steiniche, T., Pedersen, J. S., Moestrup, S. K., Degn, S. E. & Madsen, M. (2023). Epigenetic Silencing of LRP2 Is Associated with Dedifferentiation and Poor Survival in Multiple Solid Tumor Types. Cancers, 15(6), Article 1830. https://doi.org/10.3390/cancers15061830

Nielsen, M. M., Trolle, C., Vang, S., Hornshøj, H., Skakkebaek, A., Hedegaard, J., Nordentoft, I., Pedersen, J. S. & Gravholt, C. H. (2020). Epigenetic and transcriptomic consequences of excess X-chromosome material in 47,XXX syndrome-A comparison with Turner syndrome and 46,XX females. American Journal of Medical Genetics. Part C: Seminars in Medical Genetics, 184(2), 279-293. https://doi.org/10.1002/ajmg.c.31799

Castagnini, A. & Foldager, L. (2014). Epidemiology, course and outcome of acute polymorphic psychotic disorder: implications for ICD-11. Psychopathology, 47(3), 202-206. https://doi.org/10.1159/000357784

Christiansen, F. (2010). Epidemier: Truslen fra det ukendte. In M. A. Nielsen (Ed.), Det fremmede som historisk drivkraft: Danmark efter 1742 (pp. 68-76). Det Kongelige Danske Videnskabernes Selskab.

Feliu, E. & Wiuf, C. H. (2012). Enzyme-sharing as a cause of multi-stationarity in signalling systems. Journal of the Royal Society. Interface, 9(71), 1224-1232. https://doi.org/10.1098/rsif.2011.0664

Furrow, R., Christiansen, F. & Feldman, M. (2011). Environment-sensitive Epigenetics and the Heritability of Complex Diseases. Genetics, 189(4), 1377-1387. https://doi.org/10.1534/genetics.111.131912

Coll Macià, M., Skov, L., Bæk, Z. E. D. & Hobolth, A. (2026). Enhancement of hidden Markov model analyses for improved inference of archaic introgression in modern humans. Molecular Biology and Evolution, 43(6), Article msag134. https://doi.org/10.1093/molbev/msag134

Displaying results 951 to 1000 out of 1434

Revised 13.01.2026

Palle Villesen