Publications

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Li, R., Zhu, H., Ruan, J., Qian, W., Fang, X., Shi, Z., Li, Y., Li, S., Shan, G., Kristiansen, K., Li, S., Yang, H., Wang, J. & Wang, J. (2010). De novo assembly of human genomes with massively parallel short read sequencing. Genome Research, 20(2), 265-72. https://doi.org/10.1101/gr.097261.109

Justesen, P. (2010). Distinct Candidates Optimization: A Novel Approach to Applied Evolutionary Multi- and Many-Objective Optimization (1 ed.).

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.

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).

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

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

Branscheid, A., Sieh, D., Pant, B. D., May, P., Devers, E. A., Elkrog, A., Schauser, L., Scheible, W.-R. & Krajinski, F. (2010). Expression pattern suggests a role of MiR399 in the regulation of the cellular response to local Pi increase during arbuscular mycorrhizal symbiosis. Molecular plant-microbe interactions, 23(7), 915-26. https://doi.org/10.1094/MPMI-23-7-0915

Penner, R., Knudsen, M., Wiuf, C. H. & Andersen, J. E. (2010). Fatgraph Models of Proteins. Communications on Pure and Applied Mathematics, 63(10), 1249-1297. https://doi.org/10.1002/cpa.20340

Andersen, C. L., Lamy, P., Thorsen, K., Kjeldsen, E., Wikman, F., Villesen, P., Øster, B., Laurberg, S. & Ørntoft, T. F. (2010). Frequent genomic loss at chr16p13.2 is associated with poor prognosis in colorectal cancer. International Journal of Cancer. https://doi.org/10.1002/ijc.25841

Duch, M. R., Pedersen, F. S., Bahrami, S., Villesen, P., Wiuf, C. H., Østergaard, L. J. & Tolstrup, M. (2010). HIV-1 envelope polypeptides for HIV vaccine. (Patent No. WO2010022740).

Sand, A., Brask, A. T., Pedersen, C. N. S., Mailund, T. & Brask, A. T. (2010). HMMlib: A C++ Library for General Hidden Markov Models Exploiting Modern CPUs. In 2010 Ninth International Workshop on Parallel and Distributed Methods in Verification and Second International Workshop on High Performance Computational Systems Biology (pp. 126 - 134 ). IEEE.

Wiuf, C. H. & Stumpf, M. (2010). Incomplete and noisy network data as a percolation process. Journal of the Royal Society. Interface, 7(51), 1411-1419.

Sjödin, P., Bataillon, T. & Schierup, M. H. (2010). Insertion and deletion processes in recent human history. PLoS One, 5(1), e8650. https://doi.org/10.1371/journal.pone.0008650

Pearce, B. D., Grove, J., Bonney, E. A., Bliwise, N., Dudley, D. J., Schendel, D. & Thorsen, P. (2010). Interrelationship of cytokines, hypothalamic-pituitary-adrenal axis hormones, and psychosocial variables in the prediction of preterm birth. Gynecologic and Obstetric Investigation, 70(1), 40-46. https://doi.org/10.1159/000284949

Nexø, B. A., Nissen, K. K., Hansen, B., Laska, M. J., Villesen, P., Christensen, T., Oturai, A. B., Møller-Larsen, A., Petersen, T. & Pedersen, F. S. (2010). Involvement of the endogenous HERV-F(c)1 retroviral locus on the human X chromosome in the etiology of multiple sclerosis. Journal of NeuroVirology, (S1), 61.

Gregersen, N., Buttenschøn, H. N., Atli Dahl, H., Foldager, L., Kristensen, A. S., Woldby, D., Koefoed, P., Wang, AG., Joensen, S., Kruse, TA., Børglum, A. & Mors, O. (2010). Markers on chromosome 19p13 associated with panic disorder. XVIIIth World Congress on Psychiatric Genetics. Book of abstracts., 288-289.

Knudsen, M. (2010). Mathematical Models of Protein Interaction Networks and Protein Domain Structures. Det Naturvidenskabelige Fakultet, Aarhus Universitet.

Villesen, P., Eickhardt, E., Knudsen, B., Knudsen, B. R., Wiuf, C. H. & Andersen, F. F. (2010). Minimizing oligo sequence similarities for three dimensional DNA nanostructure assembly. Paper presented at Foundations of Nanosciences: Self-assembled Architectures and Devices, Snowbird, United States.

Castric, V., Bechsgaard, J. S., Grenier, S., Noureddine, R., Schierup, M. H. & Vekemans, X. (2010). Molecular evolution within and between self-incompatibility specificities. Molecular Biology and Evolution, 27(1), 11-20. https://doi.org/10.1093/molbev/msp224

Østergaard, S. D., Foldager, L., Allgulander, C., Dahl, A. A., Huuhtanen, M.-T., Rasmussen, I. & Munk-Jørgensen, P. (2010). Psychiatric caseness is a marker of major depressive episode in general practice. Scandinavian Journal of Primary Health Care, 28(4), 211-5. https://doi.org/10.3109/02813432.2010.501235

Larsen, A., Bøggild, H., Mortensen, J. T., Foldager, L., Hansen, J., Christensen, A., Arendt, M., Rosenberg, N. & Munk-Jørgensen, P. (2010). Psychopathology, defence mechanisms, and the psychosocial work environment. International Journal of Social Psychiatry, 56(6), 563-77. https://doi.org/10.1177/0020764008099555

Østergaard, S. D., Dinesen, P. T. & Foldager, L. (2010). Quantifying the Value of Markers in Screening Programmes. European Journal of Epidemiology, 25(3), 151-4. https://doi.org/10.1007/s10654-010-9430-z

Lamy, P., Wiuf, C., Ørntoft, T. F. & Andersen, C. L. (2010). Rseg - an R package to optimize segmentation of SNP array data. Bioinformatics. https://doi.org/10.1093/bioinformatics/btq668

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

Knudsen, M., Feliu, E., Wiuf, C. H. & Andersen, L. N. (2010). Steady States of Phosphorelays and Two-Component Systems. Poster session presented at The 11th International Conference on Systems Biology, Edinburgh, United Kingdom.

Hobolth, A. & Jensen, J. L. (2010). Summary statistics for end-point conditioned continuous-time Markov chains. Thiele Centre, Institut for Matematiske Fag, Aarhus Universitet.

Knudsen, M. & Wiuf, C. H. (2010). The CATH Database. Human Genomics (Online).

Schierup, M. H. & Wiuf, C. H. (2010). The coalescent in bacterial populations. In D. A. Robinson, D. Falush & E. J. Feil (Eds.), Bacterial population genetics in infectious disease (pp. 3-19). Wiley-Blackwell.

Kristensen, T. G. (2010). Transforming Tanimoto queries on real valued vectors to range queries in Euclidian space. Journal of Mathematical Chemistry, 48(2), 287-289. https://doi.org/10.1007/s10910-010-9668-4

Li, J., Wang, K., Jensen, T. D., Li, S., Bolund, L. & Wiuf, C. (2010). Tumor heterogeneity in neoplasms of breast, colon, and skin. BMC Research Notes, 3, 321. https://doi.org/10.1186/1756-0500-3-321

Foldager, L. (2010). Using logic regression to identify SNP interactions based on individually time-matched case-control data. Abstract from PhD Day 2010, Århus, Denmark.

Simonsen, M., Sand, A., Mailund, T. & Pedersen, C. N. S. (2010). Using the Power of Modern Processors in Bioformatics. Poster session presented at Conference on IT research at AU, Århus, Denmark.

Stukenbrock, E., Jørgensen, F., Zala, M., Hansen, T. T., McDonald, B. A. & Schierup, M. H. (2010). Whole-genome and chromosome evolution associated with host adaptation and speciation of the wheat pathogen Mycosphaerella graminicola. PLoS Genetics, 23(6).

Glémin, S. & Bataillon, T. (2009). A comparative view of the evolution of grasses under domestication. New Phytologist, 183(2), 273-90. https://doi.org/10.1111/j.1469-8137.2009.02884.x

Besenbacher, S., Pedersen, C. S. & Mailund, T. (2009). A fast algorithm for genome wide haplotype pattern mining. BMC Bioinformatics, (suppl. 1), 772. https://doi.org/10.1186/1471-2105-10-S1-S74

Bertioli, D., Moretzsohn, M., Madsen, L., Sandal, N., Leal-Bertioli, S., Guimaraes, P., Hougaard, B., Fredslund, J., Schauser, L., Nielsen, A., Sato, S., Tabata, S., Cannon, S. & Stougaard, J. (2009). An analysis of synteny of Arachis with Lotus and Medicago sheds new light on the structure, stability and evolution of legume genomes. BMC Genomics, 10(1), 45. https://doi.org/10.1186/1471-2164-10-45

Dutheil, J., Ganapathy, G., Hobolth, A., Mailund, T., Uyenoyama, M. & Schierup, M. H. (2009). Ancestral population genomics: the coalescent hidden Markov model approach. Genetics, 183(1), 259–274. https://doi.org/10.1534/genetics.109.103010

Li, J., Gao, F., Li, N., Li, S., Yin, G., Tian, G., Jia, S., Wang, K., Zhang, X., Yang, H., Nielsen, A. L. & Bolund, L. (2009). An improved method for genome wide DNA methylation profiling correlated to transcription and genomic instability in two breast cancer cell lines. BMC Genomics, 10, 223. https://doi.org/10.1186/1471-2164-10-223

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

Foldager, L., Steffensen, R. N., Thiel, S., Als, T. D., Kristensen, A. S., Straarup, S., Nielsen, H. J., Nordentoft, M., Mortensen, P. B., Rosenberg, R., Mors, O. & Jensenius, J. C. (2009). Are defects in the innate immune defense contributing factors for mental disorders? In PhD Day 2009 Abstract Book (pp. 107)

Kristensen, T. G., Nielsen, J. & Pedersen, C. N. S. (2009). A tree based method for the rapid screening of chemical fingerprints. Lecture Notes in Computer Science, 5724, 194-205. https://doi.org/10.1007/978-3-642-04241-6_17

Liboriussen, P., Pedersen, B. P., Ifrim, G., Nissen, P. & Pedersen, C. S. (2009). Automatic classification of P-Type ATPases using SLR. Poster session presented at 17th Annual International Conference on Intelligent Systems for Molecular Biology (ISMB) & 8th European Conference on Computational Biology (ECCB), Stockholm, Sweden.

Simonsen, M., Mailund, T. & Pedersen, C. S. (2009). Building very large neighbour-joining trees. Poster session presented at 17th Annual International Conference on Intelligent Systems for Molecular Biology (ISMB) & 8th European Conference on Computational Biology (ECCB), Stockholm, Sweden.

Zieger, K., Wiuf, C., Jensen, K. M.-E., Ørntoft, T. F. & Andersen, L. D. (2009). Chromosomal imbalance in the progression of high-risk non-muscle invasive bladder cancer. B M C Cancer, 9, 149. https://doi.org/10.1186/1471-2407-9-149

Zieger, K., Wiuf, C. H., Jensen, K. M.-E., Ørntoft, T. F. & Andersen, L. D. (2009). Chromosomal imbalance in the progression of high-risk non-muscle invasive bladder cancer. B M C Cancer, 9, 149.

Høgslund, N., Radutoiu, S., Krusell, L., Voroshilova, V., Hannah, M. A., Goffard, N., Sanchez, D. H., Lippold, F., Ott, T., Sato, S., Tabata, S., Liboriussen, P., Lohmann, G. V., Schauser, L., Weiller, G. F., Udvardi, M. K. & Stougaard, J. (2009). Dissection of symbiosis and organ development by integrated transcriptome analysis of lotus japonicus mutant and wild-type plants. PLoS One, 4(8), e6556. https://doi.org/10.1371/journal.pone.0006556

Li, J., Wang, K., Li, S., Timmermans-Wielenga, V., Rank, F., Wiuf, C., Zhang, X., Yang, H. & Bolund, L. (2009). DNA copy number aberrations in breast cancer by array comparative genomic hybridization. Genomics Proteomics & Bioinformatics, 7(1-2), 13-24. https://doi.org/10.1016/S1672-0229(08)60029-7

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

Christiansen, F. & Fenchel, T. (2009). Evolution - Den forudsigelige vilkårlighed. Aarhus Universitetsforlag.

Boggs, N. A., Dwyer, K. G., Shah, P., McCulloch, A. A., Bechsgaard, J., Schierup, M. H., Nasrallah, M. E. & Nasrallah, J. B. (2009). Expression of distinct self-incompatibility specificities in Arabidopsis thaliana. Genetics, 182(4), 1313-21. https://doi.org/10.1534/genetics.109.102442

Displaying results 951 to 1000 out of 1414

Revised 13.01.2026

Palle Villesen