Publications

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Mailund , Pedersen, C. N. S., Bardino, J., Vinter, B. & Karlsen, H. H. (2005). Initial experiences with GeneRecon on MiG. In Proceedings of The 2005 International Conference on Grid Computing and Applications (GCA)

Mailund & Pedersen, C. N. S. (2004). QDist—Quartet Distance Between Evolutionary Trees. Bioinformatics, 20(10), 1636-1637.

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

Mailund , Schierup, M. H., Pedersen, C. N. S., Mechlenborg, P., Madsen, J. N. & Schauser, L. (2005). CoaSim: A Flexible Environment for Simulating Genetic Data under Coalescent Models. BMC Bioinformatics, 6(252). http://www.biomedcentral.com/1471-2105/6/252

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

Mailund, T. & Pedersen, C. N. S. (2004). QDist - Quartet Distance between Evolutionary Trees. Bioinformatics, 20(10), 1636-1637.

Mailund, T. (2004). SplitDist—Calculating Split-Distances for Sets of Trees.

Mailund, T. (2005). Getting Started with CoaSim — An Introduction to the Simulator CoaSim.

Mailund, T. (2006). CoaSim Guile Manual — Using the Guile-based CoaSim Simulator.

Mailund, T. & Schauser, L. (2006). Getting Started with GeneRecon — An Introduction to the Association Mapping Tool GeneRecon.

Mailund, T. (2006). GeneRecon Users' Manual — A coalescent based tool for fine-scale association mapping.

Mailund, T. (2006). Getting Started with Blossoc. http://www.daimi.au.dk/~mailund/Blossoc/download/getting-started-1.1.pdf

Mailund, T., Schierup, M. H., Pedersen, C. N. S., Madsen, J. N., Hein, J. & Schauser, L. (2006). GeneRecon—A coalescent based tool for fine-scale association mapping. Bioinformatics, 22(18), 2317–2318.

Mailund, T., Besenbacher, S. & Schierup, M. H. (2006). Whole genome association mapping by incompatibilities and local perfect phylogenies. BMC Bioinformatics, 7(454). https://doi.org/10.1186/1471-2105-7-454

Mailund, T., Pedersen, C. N. S., Bardino, J., Vinter, B. & Karlsen, H. (2007). Experiences with GeneRecon on MiG. Future Generation Computer Systems - The International Journal of eScience, 23, 580-586. https://doi.org/10.1016/j.future.2006.09.003

Mailund, T. (2006). Getting Started with HapCluster: An introduction to the HapCluster association mapping tool.

Mailund, T., Nielsen, J. & Pedersen, C. S. (2009). A Quadratic Time Algorithm for Computing the Quartet Distance between Two General Trees. In Proceedings of IJCBS 2009 (pp. 565-568). IEEE Computer Society Press. https://doi.org/10.1109/IJCBS.2009.42

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

Mailund, T., Halager, A. E. & Westergaard, M. (2012). Using colored Petri nets to construct coalescent hidden markov models: Automatic translation from demographic specifications to efficient inference methods. Lecture Notes in Computer Science, 7347, 32-50. https://doi.org/10.1007/978-3-642-31131-4_3

Mailund, T., Halager, A. E., Westergaard, M., Dutheil, J. Y., Munch, K., Andersen, L. N., Lunter, G., Prüfer, K., Scally, A., Hobolth, A. & Schierup, M. H. (2012). A New Isolation with Migration Model along Complete Genomes Infers Very Different Divergence Processes among Closely Related Great Ape Species. PLoS Genetics, 8(12), e1003125. https://doi.org/10.1371/journal.pgen.1003125

Mailund, T., Munch, K. & Schierup, M. H. (2014). Lineage sorting in apes. Annual Review of Genetics, 48, 519-535. https://doi.org/10.1146/annurev-genet-120213-092532

Mailund, T., Munch, K. & Schierup, M. H. (2014). Inferring the Process of Human–Chimpanzee Speciation. In Encyclopedia of Life Sciences Wiley. https://doi.org/10.1002/9780470015902.a0020833.pub2

Mailund, T. (2017). Beginning Data Science in R: Data Analysis, Visualization, and Modelling for the Data Scientist. Apress.

Mailund, T. (2017). Functional Programming in R: Advanced Statistical Programming for Data Science, Analysis and Finance . Apress.

Mailund, T. (2017). Metaprogramming in R: Advanced Statistical Programming for Data Science, Analysis and Finance . Apress.

Mailund, T. (2017). Advanced Object-Oriented Programming in R: Statistical Programming for Data Science, Analysis, and Finance . Apress.

Mailund, T. (2017). Functional data structures in R: advanced statistical programming in R. Apress. https://doi.org/10.1007/978-1-4842-3144-9

Mailund, T. (2018). Domain-Specific Languages in R: Advanced Statistical Programming. Apress. https://doi.org/10.1007/978-1-4842-3588-1

Mailund, T. (2019). The Joys of Hashing: Hash Table Programming with C. Apress. https://doi.org/10.1007/978-1-4842-4066-3

Maier, R. M., Zhu, Z., Lee, S. H., Trzaskowski, M., Ruderfer, D. M., Stahl, E. A., Ripke, S., Wray, N. R., Yang, J., Visscher, P. M., Robinson, M. R., Forstner, A. J., Mcquillin, A., Trubetskoy, V., Wang, W., Wang, Y., Coleman, J. R. I., Gaspar, H. A., De Leeuw, C. A. ... Zammit, S. (2018). Improving genetic prediction by leveraging genetic correlations among human diseases and traits. Nature Communications, 9(1), Article 989. https://doi.org/10.1038/s41467-017-02769-6

Mai, D. M., Sahana, G., Christiansen, F. & Guldbrandtsen, B. (2010). A genome-wide association study for milk production traits in Danish Jersey cattle using a 50K single nucleotide polymorphism chip. Journal of Animal Science, 88, 3522-3528.

Maetschke, S. R., Simonsen, M., Davis, M. J. & Mark, A. (2011). Gene Ontology-driven inference of protein-protein interactions using inducers. Bioinformatics, 28(1), 69-75. https://doi.org/10.1093/bioinformatics/btr610

Madsen, L. H., Fukai, E., Radutoiu, E. S., Yost, C. K., Sandal, N. N., Schauser, L. & Stougaard, J. (2005). LORE1, an active low-copy-number TY3-gypsy retrotransposon family in the model legume Lotus japonicus. Plant. J., 44, 372-381.

Madsen, B. E., Villesen, P. & Wiuf, C. (2007). A periodic pattern of SNPs in the human genome. Poster session presented at High Throughput Biology: Genomics, Fluxomics, Proteomics, and Interactomics, Vejle, Denmark.

Madsen, B. E., Villesen, P. & Wiuf, C. (2007). A periodic pattern of SNPs in the human genome. Poster session presented at Genomics of Common Diseases, Cambridge.

Madsen, B. E., Villesen, P. & Wiuf, C. (2007). A periodic pattern of SNPs in the human genome. Genome Research, 17(10), 1414-1419.

Madsen, B. E., Ramos, E. M., Boulard, M., Duda, K., Overgaard, J., Nordsmark, M., Wiuf, C. & Hansen, L. L. (2008). Germline mutation in RNASEL predicts increased risk of head and neck, uterine cervix and breast cancer. PLoS One, 3(6), e2492. https://doi.org/10.1371/journal.pone.0002492

Madsen, B. E., Villesen, P. & Wiuf, C. (2008). Short tandem repeats in human exons: a target for disease mutations. BMC Genomics, 9, 410. https://doi.org/10.1186/1471-2164-9-410

Madsen, B. E., Villesen, P. & Wiuf, C. (2010). Short tandem repeats and genetic variation. Methods in Molecular Biology, 628, 297-306. https://doi.org/10.1007/978-1-60327-367-1_16

Madsen, T., Hobolth, A., Jensen, J. L. & Pedersen, J. S. (2017). Significance evaluation in factor graphs. BMC Bioinformatics , 18(1), 199. Article 199. https://doi.org/10.1186/s12859-017-1614-z

Madsen, T. (2017). Robust statistical methods for significance evaluation and applications in cancer driver detection and biomarker discovery.

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

Maag, E., Kulasingam, A., Grove, E. L., Pedersen, K. S., Kristensen, S. D. & Hvas, A. M. (2021). Statistical and machine learning methods for analysis of multiplex protein data from a novel proximity extension assay in patients with ST-elevation myocardial infarction. Scientific Reports, 11(1), Article 13787. https://doi.org/10.1038/s41598-021-93162-3

Ma, J., Bechsgaard, J. S., Lauridsen, A. A., Villesen, P., Bilde, T. & Schierup, M. H. (2025). The genomic consequences and persistence of sociality in spiders. Genome Research, 35(3), 499-511. https://doi.org/10.1101/gr.279503.124

Ma, J. (2024). Genomic Responses to Evolution of Sociality in Stegodyphus Spiders. [PhD dissertation, Aarhus University]. Aarhus Universitet.

Luo, Y., Li, J., Liu, Y., Lin, L., Du, Y., Li, S., Yang, H., Vajta, G., Callesen, H., Bolund, L. & Sørensen, C. B. (2011). High efficiency of BRCA1 knockout using rAAV-mediated gene targeting: developing a pig model for breast cancer. Transgenic Research, 20, 975-988. https://doi.org/10.1007/s11248-010-9472-8

Luo, X.-J., Mattheisen, M., Li, M., Huang, L., Rietschel, M., Børglum, A. D., Als, T. D., van den Oord, E. J., Aberg, K. A., Mors, O., Mortensen, P. B., Luo, Z., Degenhardt, F., Cichon, S., Schulze, T. G., Nöthen, M. M., Su, B., Zhao, Z., Gan, L. ... iPSYCH-GEMS SCZ working group (Jakob Grove, member) (2015). Systematic Integration of Brain eQTL and GWAS Identifies ZNF323 as a Novel Schizophrenia Risk Gene and Suggests Recent Positive Selection Based on Compensatory Advantage on Pulmonary Function. Schizophrenia Bulletin. https://doi.org/10.1093/schbul/sbv017

Lund, H. H., Arendt, J. A., Fredslund, J. & Pagliarini, L. (1999). Ola: What Goes Up, Must Fall Down. In Proceedings of Artificial Life and Robotics 1999 (AROB'99) (pp. I-9 - I-15)

Ludvigsen, M., Bjerregård Pedersen, M., Lystlund Lauridsen, K., Svenstrup Poulsen, T., Hamilton-Dutoit, S. J., Besenbacher, S., Bendix, K., Møller, M. B., Nørgaard, P., d'Amore, F. & Honoré, B. (2018). Proteomic profiling identifies outcome-predictive markers in patients with peripheral T-cell lymphoma, not otherwise specified. Blood Advances, 2(19), 2533-2542. https://doi.org/10.1182/bloodadvances.2018019893

Lucotte, E. A., Laurent, R., Heyer, E., Segurel, L. & Toupance, B. (2016). Detection of Allelic Frequency Differences between the Sexes in Humans: A Signature of Sexually Antagonistic Selection. Genome Biology and Evolution, 8(5), 1489-1500. https://doi.org/10.1093/gbe/evw090

Displaying results 551 to 600 out of 1406

Revised 13.01.2026

Palle Villesen