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Bioinformatics Research Centre

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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. P L o S 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. B M C 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. B M C 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. B M C 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. P L o S 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. B M C 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

Ratmann, O., Wiuf, C. H. & Pinney, J. W. (2009). From evidence to inference: probing the evolution of protein interaction networks. H F S P Journal, 3(5), 290-306. https://doi.org/10.2976/1.3167215

Hollegaard, M., Grauholm, J., Børglum, A., Nyegaard, M., Nørgaard-Pedersen, B., Ørntoft, T., Mortensen, P. B., Wiuf, C., Mors, O., Didriksen, M., Thorsen, P. & Hougaard, D. M. (2009). Genome-wide scans using archived neonatal dried blood spot samples. B M C Genomics, 10, 297. https://doi.org/10.1186/1471-2164-10-297

Schierup, M. H., Mailund, T., Li, H., Wang, J., Tjønneland, A., Vogel, U., Bolund, L. & Nexø, B. A. (2009). Haplotype frequencies in a sub-region of chromosome 19q13.3, related to risk and prognosis of cancer, differ dramatically between ethnic groups. B M C Medical Genetics, 10, 20. https://doi.org/10.1186/1471-2350-10-20

Martins, H. & Villesen, P. (2009). Highly improved dating of primate ERV integrations. Poster session presented at Frontiers of Retrovirology: Complex retroviruses, retroelements and their hosts, Montpellier, France. https://doi.org/10.1186/1742-4690-6-S2-P54

Staunstrup, N. H., Moldt, B., Mátés, L., Villesen, P., Jakobsen, M., Ivics, Z., Izsvák, Z. & Mikkelsen, J. G. (2009). Hybrid Lentivirus-transposon Vectors With a Random Integration Profile in Human Cells. Molecular Therapy, 17(7), 1205-14. https://doi.org/10.1038/mt.2009.10

Dittmer, J., Thøgersen, L., Underhaug, J., Bertelsen, K., Vosegaard, T., Pedersen, J. M., Schiøtt, H. B., Tajkhorshid, E., Skrydstrup, T. & Nielsen, N. C. (2009). Incorporation of Antimicrobial Peptides into Membranes: A Combined Liquid-State NMR and Molecular Dynamics Study of Alamethicin in DMPC/DHPC Bicelles. Journal of Physical Chemistry Part B: Condensed Matter, Materials, Surfaces, Interfaces & Biophysical, 113(19), 6928-6937. https://doi.org/10.1021/jp811494p

Jørgensen, F. G. & Schierup, M. H. (2009). Increased rate of human mutations where DNA and RNA polymerases collide. Trends in Genetics, 25(12), 523-527. https://doi.org/10.1016/j.tig.2009.10.002

Nielsen, J., Foldager, L. & Meyer, J. M. (2009). Increased use of antibiotics in patients treated with clozapine. European Neuropsychopharmacology, 19(7), 483-486.

Nielsen, J., Pedersen, C. S. & Hein, J. (2009). Investigation of a simple heuristic improving the speed of statistical alignments. Poster session presented at 17th Annual International Conference on Intelligent Systems for Molecular Biology (ISMB) & 8th European Conference on Computational Biology (ECCB), Stockholm, Sweden.

Kristensen, T. G., Pedersen, C. S., Thomsen, R. & Christensen, M. H. (2009). Largest Common Chemical Feature Subtree as a Virtual Screening Method. Poster session presented at 17th Annual International Conference on Intelligent Systems for Molecular Bioligy (ISMB) & 8th European Conference on Computational Biology (ECCB), Stockholm, Sweden. http://www.iscb.org/ismbeccb2009/poster_list.php?cat=C

Besenbacher, S., Mailund, T. & Schierup, M. H. (2009). Local phylogeny mapping of quantitative traits: Higher accuracy and better ranking than single marker association in genomewide scans. Genetics, 181, 747-753.

Wiuf, C. H., Lamy, P. & Andersen, C. L. (2009). Methods for derivation of LOH and allelic copy numbers using SNP arrays. In C. H. Wiuf & C. L. Andersen (Eds.), Statistics and Informatics in Molecular Cancer Research (pp. 62-77). Oxford University Press.

Ratmann, O., Andrieu, C., Wiuf, C. H. & Richardson, S. (2009). Model criticism based on likelihood-free inference: with an application to protein network evolution. Proceedings of the National Academy of Sciences, 106, 10576-10581. https://doi.org/10.1073/pnas.0807882106

Knudsen, M. & Nielsen, R. (2009). Modeling cis- and trans-regulation in Drosophila species. In Tampere International Center for Signal Processing, TICSP Series 48 Tampere International Center for Signal Processing.

Kraft, J. F., Lie, M. A. & Schiøtt, H. B. (2009). Molecular Docking Simulations: Improvement of methodologies for membrane proteins. Poster session presented at iNANO autumn school 2007.

Justesen, P. & Ursem, R. K. (2009). Multiobjective Distinct Candidates Optimization (MODCO): A Cluster-Forming Differential Evolution Algorithm. In M. Ehrgott, C. Fonseca, X. Gandibleux, J.-K. Hao & M. Sevaux (Eds.), Evolutionary Multi-Criterion Optimization: 5th International Conference, EMO 2009. Nantes, France, April 2009. Proceedings (Vol. 5, pp. 525-539). Springer. https://doi.org/10.1007/978-3-642-01020-0_41

Kristensen, T. G. & Pedersen, C. S. (2009). Optimal Overlay of Ligands with Flexible Bonds Using Differential Evolution. In J. Zhang, G.-Z. Li & J. Y. Yang (Eds.), Proceedings of the 2009 International Joint conferences on Bioinformatics, System biology and Intelligent Computing (IJCBS2009) (pp. 331-334). IEEE Computer Society Press. https://doi.org/10.1109/IJCBS.2009.36

Pedersen, C. S. & Kristensen, T. G. (2009). Optimal Overlay of Ligands with Flexible Bonds Using Differential Evolution. Poster session presented at 17th Annual International Conference on Intelligent Systems for Molecular Bioligy (ISMB) & 8th European Conference on Computational Biology (ECCB), Stockholm, Sweden. http://www.iscb.org/ismbeccb2009/poster_list.php?cat=C

Thøgersen, L. (2009). Protein Domain Model: A preliminary exploration. Poster session presented at Faraday Discussion: Multiscale Modelling of Soft Matter, Groningen, Netherlands.

Kristensen, L. S., Wojdacz, T. K., Thestrup, B. B., Wiuf, C. H., Hager, H. & Hansen, L. L. (2009). Quality assessment of DNA derived from up to 30 years old formalin fixed paraffin embedded (FFPE) tissue for PCR-based methylation analysis using SMART-MSP and MS-HRM. B M C Cancer, 9(453), 453.

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, 106(13), 5246-51. https://doi.org/10.1073/pnas.0808012106

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

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

Preker, P., Nielsen, J., Schierup, M. H. & Jensen, T. H. (2009). RNA polymerase plays both sides: Vivid and bidirectional transcription around and upstream of active promoters. Cell Cycle, 8(8), 1106-1107.

Hobolth, A. & Stone, E. (2009). Simulation from endpoint-conditioned, continuous-time Markov chains on a finite state space, with applications to molecular evolution. Annals of Applied Statistics, 3(3), 1204-1231. https://doi.org/10.1214/09-AOAS247

Wiuf, C. H. & Andersen, C. L. (Eds.) (2009). Statistics and Informatics in Molecular Cancer Research. (1 ed.) Oxford University Press.

Wiuf, C. H. & Andersen, C. L. (Eds.) (2009). Statistics and Informatics in Molecular Cancer Research. Oxford University Press.

Andersen, L. N. & Mandjes, M. (2009). Structural properties of reflected Lévy processes. Queueing Systems, 63(1-4), 301-322. https://doi.org/10.1007/s11134-009-9116-y

Pradal, C., Olesen, J. M. & Wiuf, C. H. (2009). Temporal development and collapse of an Arctic plant-pollinator network. B M C Ecology, 9. https://doi.org/10.1186/1472-6785-9-24

Liljas, A., Liljas, L., Piskur, J., Lindblom, G., Nissen, P. & Kjeldgaard, M. (2009). Textbook on Structural Biology. (1 ed.) World Scientific.

Hobolth, A. & Wiuf, C. H. (2009). The genealogy, site frequency spectrum and ages of two nested mutant alleles. Theoretical Population Biology, 75(4), 260-265. https://doi.org/10.1016/j.tpb.2009.02.001

Schoustra, S. E., Bataillon, T., Gifford, D. R. & Kassen, R. (2009). The properties of adaptive walks in evolving populations of fungus. P L o S Biology, 7(11), e1000250. https://doi.org/10.1371/journal.pbio.1000250

Displaying results 851 to 900 out of 1281

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Palle Villesen