2011

• Nexø, B. A., Christensen, T., Frederiksen, J., Møller-Larsen, A., Oturai, A. B., Villesen, P., Hansen, B., Nissen, K. K., Laska, M. J., Petersen, T. S., Bonnesen, S., Hedemand, A., Wu, T., Wang, X., Zhang, X., Brudek, T., Maric, R., Søndergaard, H., Sellebjerg, F. T., Brusgaard, K., Kjeldbjerg, A. L., Rasmussen, H. B., Nielsen, A. L., Nyegaard, M., Petersen, T., Børglum, A. D., Pedersen, F. S., 1.1.2011, "The Etiology of Multiple Sclerosis: Genetic Evidence for the Involvement of the Human Endogenous Retrovirus HERV-Fc1", P L o S One, vol. 6, nr. 2, s. e16652. Journal article
• Grivet, D., Sebastiani, F., Alía, R., Bataillon, T., Torre, S., Zabal-Aguirre, M., Vendramin, G. G., González-Martínez, S. C., 1.1.2011, "Molecular footprints of local adaptation in two Mediterranean conifers", Molecular Biology and Evolution, vol. 28, nr. 1, s. 101-16. Journal article
• Martins, H., Villesen, P., 1.1.2011, "Improved integration time estimation of endogenous retroviruses with phylogenetic data", P L o S One, vol. 6, nr. 3, s. e14745. Journal article
• Østergaard, S. D., Foldager, L., 11.1.2011, "The association between physical illness and major depressive episode in general practice", Acta Psychiatrica Scandinavica, vol. 123, nr. 4, s. 290-296. Journal article
• Kristensen, T. G., Nielsen, J., Pedersen, C. S., 18.2.2011, "Using Inverted Indices for Accelerating LINGO Calculations", Journal of Chemical Information and Modeling, vol. 51, nr. 3, s. 597-600. Journal article
• Wiechec, E., Wiuf, C., Overgaard, J., Hansen, L. L., 1.3.2011, "High-Resolution Melting Analysis for Mutation Screening of RGSL1, RGS16, and RGS8 in Breast Cancer", Cancer Epidemiology, Biomarkers & Prevention, vol. 20, nr. 2, s. 397-407. Journal article
• Øster, B., Thorsen, K., Lamy, P., Wojdacz, T. K., Hansen, L. L., Birkenkamp-Demtröder, K., Dalsgaard Sørensen, K., Laurberg, S., Ørntoft, T. F., Andersen, C. L., 11.3.2011, "Identification and validation of highly frequent CpG island hypermethylation in colorectal adenomas and carcinomas", International Journal of Cancer. Journal article
• Laurila, K., Øster, B., Andersen, C. L., Lamy, P., Orntoft, T., Yli-Harja, O., Wiuf, C., 27.5.2011, "A Beta-Mixture Model for Dimensionality Reduction, Sample Classification and Analysis", B M C Bioinformatics, vol. 12, nr. 1, s. 215. Journal article
• Nielsen, J., Kristensen, A. K., Mailund, T., Pedersen, C. S., 3.6.2011, "A sub-cubic time algorithm for computing the quartet distance between two general trees", Algorithms for Molecular Biology, vol. 6, nr. 15. Journal article
• Hvidtjørn, D., Grove, J., Schendel, D., Schieve, L., Sværke, C., Ernst, E., Thorsen, P., 6.2011, "Risk of Autism Spectrum Disorders in children born after assisted conception. A population based follow-up study.", Journal of Epidemiology & Community Health, vol. 65, nr. 6, s. 497-502. Journal article
• Østergaard, S. D., Foldager, L., 1.7.2011, "Reply", Acta Psychiatrica Scandinavica, vol. 124, nr. 1, s. 75-6. Letter
• Hollegaard, M. V., Grove, J., Grauholm, J., Kreiner-Moller, E., Bonnelykke, K., Nørgaard, M., Benfield, T. L., Norgaard-Pedersen, B., Mortensen, P. B., Mors, O., Sørensen, H. T., Harboe, Z. B., Børglum, A., Demontis, D., Ørntoft, T. F., Bisgaard, H., Hougaard, D. M., 4.7.2011, "Robustness of genome-wide scanning using archived dried blood spot samples as a DNA source", B M C Genetics, vol. 12, nr. 1, s. 58. Journal article
• Rietschel, M., Mattheisen, M., Degenhardt, F., Kahn, R. S., Linszen, D. H., Os, J. v., Wiersma, D., Bruggeman, R., Cahn, W., de Haan, L., Krabbendam, L., Myin-Germeys, I., Mühleisen, T. W., Kirsch, P., Esslinger, C., Herms, S., Demontis, D., Steffens, M., Strohmaier, J., Haenisch, B., Breuer, R., Czerski, P. M., Giegling, I., Strengman, E., Schmael, C., Mors, O., Mortensen, P. B., Hougaard, D. M., Ørntoft, T. F., Kapelski, P., Kjær, L. P., Basmanav, F. B., Forstner, A. J., Hoffmann, P., Meier, S., Nikitopoulos, J., Moebus, S., Alexander, M., Mössner, R., Wichmann, P. E., Schreiber, S., Rivandeneira, F., Hofman, A., Uitterlinden, A. G., Wienker, T. F., Schumacher, J., Hauser, J., Maier, W., Cantor, R. M., Erk, S., Schulze, T. G., Stefansson, H., Steinberg, S., Gustafsson, O., Sigurdsson, E., Petursson, H., Kong, A., Stefansson, K., Pietiläinen, O. P. H., Tuulio-Henriksson, A., Paunio, T., Lonnqvist, J., Suvisaari, J., Peltonen, L., Ruggeri, M., Tosato, S., Walshe, M., Murray, R., Collier, D. A., Clair, D. S., Hansen, T., Ingason, A., Jakobsen, K. D., Duong, L., Werge, T., Melle, I., Andreassen, O. A., Djurovic, S., Bitter, I., Réthelyi, J. M., Abramova, L., Kaleda, V., Golimbet, V., Jönsson, E. G., Terenius, L., Agartz, I., Winkel, R. v., Kenis, G., Hert, M. D., Veldink, J., Wiuf, C., Didriksen, M., Craddock, N., Owen, M. J., O'Donovan, M. C., Børglum, A. D., Rujescu, D., Walter, H., Meyer-Lindenberg, A., Nöthen, M. M., Ophoff, R. A., Cichon, S., 12.7.2011, "Association between genetic variation in a region on chromosome 11 and schizophrenia in large samples from Europe", Molecular Psychiatry. Journal article
• Reinert, T., Modin, C., Mansilla Castano, F., Lamy, P., Wojdacz, T. K., Hansen, L. L., Wiuf, C., Borre, M., Dyrskjøt, L., Orntoft, T. F., 25.7.2011, "Comprehensive genome methylation analysis in bladder cancer;identification and validation of novel methylated genes and application of these as urinary tumor markers", Clinical Cancer Research. Journal article
• Steinberg, S., de Jong, S., Andreassen, O. A., Werge, T., Børglum, A. D., Mors, O., Mortensen, P. B., Gustafsson, O., Costas, J., Pietiläinen, O. P. H., Demontis, D., Papiol, S., Huttenlocher, J., Mattheisen, M., Breuer, R., Vassos, E., Giegling, I., Fraser, G., Walker, N., Tuulio-Henriksson, A., Suvisaari, J., Lönnqvist, J., Paunio, T., Agartz, I., Melle, I., Djurovic, S., Strengman, E., Jürgens, G., Glenthøj, B., Terenius, L., Hougaard, D. M., Orntoft, T., Wiuf, C., Didriksen, M., Hollegaard, M. V., Nordentoft, M., van Winkel, R., Kenis, G., Abramova, L., Kaleda, V., Arrojo, M., Sanjuán, J., Arango, C., Sperling, S., Rossner, M., Ribolsi, M., Magni, V., Siracusano, A., Christiansen, C., Kiemeney, L. A., Veldink, J., van den Berg, L., Ingason, A., Muglia, P., Murray, R., Nöthen, M. M., Sigurdsson, E., Petursson, H., Thorsteinsdottir, U., Kong, A., Rubino, I. A., De Hert, M., Réthelyi, J. M., Bitter, I., Jönsson, E. G., Golimbet, V., Carracedo, A., Ehrenreich, H., Craddock, N., Owen, M. J., O'Donovan, M. C., Ruggeri, M., Tosato, S., Peltonen, L., Ophoff, R. A., Collier, D. A., St Clair, D., Rietschel, M., Cichon, S., Stefansson, H., Rujescu, D., Stefansson, K., , , 26.7.2011, "Common Variants at VRK2 and TCF4 Conferring Risk of Schizophrenia", Human Molecular Genetics, vol. 20, nr. 20, s. 4076-81. Journal article
• Nielsen, J., 29.7.2011, "Engineering Algorithms for Finding Patterns in Biological Data". Ph.d. thesis
• Locke, D. P., Hillier, L. W., Warren, W. C., Yang, S., Wang, Z., Chinwalla, A. T., Minx, P., Mitreva, M., Cook, L., Delehaunty, K. D., Fronick, C., Schmidt, H., Fulton, L. A., Fulton, R. S., Nelson, J. O., Magrini, V., Pohl, C., Graves, T. A., Markovic, C., Weinstock, G. M., Mardis, E. R., Wilson, R. K., Worley, K. C., Nazareth, L. V., Muzny, D. M., Cree, A., Dinh, H. H., Hume, J., Kovar, C. L., Fowler, G. R., Rogers, J., Gibbs, R. A., Lunter, G., Meader, S., Heger, A., Ponting, C. P., Marques-Bonet, T., Alkan, C., Cheng, L., Cheng, Z., Kidd, J. M., Eichler, E. E., Faria, R., Fernando, O., Darré, F., Farré, D., Gazave, E., Oliva, M., Navarro, A., White, S., Searle, S., Vilella, A. J., Chen, Y., Flicek, P., Herrero, J., Ma, J., Raney, B., Suh, B., Haussler, D., Burhans, R., Ratan, A., Harris, R. S., Miller, W., Roberto, R., Capozzi, O., Archidiacono, N., Rocchi, M., Della Valle, G., Purgato, S., Konkel, M. K., Walker, J. A., Batzer, M. A., Ullmer, B., Smit, A. F. A., Hubley, R., Casola, C., Schrider, D. R., Hahn, M. W., Quesada, V., Puente, X. S., Ordoñez, G. R., López-Otín, C., Vinar, T., Brejova, B., Kosiol, C., Lawson, H. A., Taliwal, V., Martins, A. L., Siepel, A., Ma, X., Degenhardt, J., RoyChoudhury, A., Bustamante, C. D., Gutenkunst, R. N., Mailund, T., Dutheil, J., Hobolth, A., Schierup, M. H., Ryder, O. A., Yoshinaga, Y., de Jong, P. J., 2011, "Comparative and demographic analysis of orang-utan genomes", Nature, vol. 469, s. 529-533. Journal article
• Hobolth, A., Dutheil, J., Hawks, J., Schierup, M. H., Mailund, T., 2011, "Incomplete lineage sorting patterns among human, chimpanzee and orangutan suggest recent orangutan speciation and widespread selection", Genome Research, vol. 21, nr. 3, s. 349-356. Journal article
• Andersen, L. N., 2011, "Subexponential loss rate asymptotics for Lévy processes", Mathematical Methods of Operations Research, vol. 73, nr. 1, s. 91-108. Journal article
• Bache, C., Christiansen, F., Harder, P., Rørdam, M., Sneppen, K., 2011, "Kvalitet i universitetsuddannelserne - forskningsbaseret undervisning". Book
• 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", P L o S Genetics, vol. 7, nr. 3. Journal article
• Penner, R., Knudsen, M., Wiuf, C. H., Andersen, J. E., 2011, "An Algebro-Topological Description of Protein Domain Structure", P L o S One. Journal article
• Feliu, E., Knudsen, M., Andersen, L. N., Wiuf, C. H., 2011, "An Algebraic Approach to Signaling Cascades with n Layers", Bulletin of Mathematical Biology, vol. 74, nr. 1, s. 45-72. Journal article
• Hobolth, A., Andersen, L. N., Mailund, T., 2011, "On computing the coalescence time density in an isolation-with-migration model with few samples", Genetics, vol. 187, s. 1242-1243. Letter
• Simonsen, M., Mailund, T., Pedersen, C. S., 2011, "Inference of Large Phylogenies Using Neighbour-Joining", Biomedical Engineering Systems and Technologies, vol. 127, nr. 5, s. 334-344. Journal article
• Andersen, L. N., Asmussen, S., 2011, "Local time asymptotics for centered Lévy processes with two-sided reflection", Stochastic Models, vol. 27, nr. 2, s. 202-219. Journal article
• Sonntag, Y., Musgaard, M., Olesen, C., Schiøtt, B., Møller, J. V., Nissen, P., Thøgersen, L., 2011, "Mutual adaptation of a membrane protein and its lipid bilayer during conformational changes", Nature Communications, vol. 2, nr. 304. Journal article
• Gao, F., Li, S., Lin, L., Li, J., Luo, Y., Zhang, X., Nielsen, A. L., Bolund, L., 2011, "DNA Methylation in Peripheral Blood Cells of Pigs Cloned by Somatic Cell Nuclear Transfer", Cellular Reprogramming. Journal article
• Villesen, P., Gosmer, K., Lindholst, C., 2011, "Kemiske fingeraftryk fælder narkoforbryderne", Aktuel Naturvidenskab, nr. 3. Journal article
• Nielsen, J., 2011, "A Coarse-to-Fine Approach to Computing the k-best Viterbi Paths", Lecture Notes in Computer Science, vol. 6661, s. 376-387. Conference article
• Stukenbrock, E. H., Bataillon, T., Dutheil, J. Y., Hansen, T. T., Li, R., Zala, M., McDonald, B. A., Wang, J., Schierup, M. H., 2011, "The making of a new pathogen: Insights from comparative population genomics of the domesticated wheat pathogen Mycosphaerella graminicola and its wild sister species", Genome Research, vol. 21, s. 2157-2166. Journal article

2010

• Pearce, B., Grove, J., Bonney, E., Bliwise, N., Dudley, D., Thorsen, P., 17.2.2010, "Interrelationship of cytokines, hypothalamic-pituitary-adrenal axis hormones, and psychosocial variables in the prediction of preterm birth", Gynecologic and Obstetric Investigation, vol. 70, nr. 1, s. 40-46. Journal article
• Østergaard, S. D., Dinesen, P. T., Foldager, L., 1.3.2010, "Quantifying the Value of Markers in Screening Programmes", European Journal of Epidemiology, vol. 25, nr. 3, s. 151-4. Journal article
• Hvidtjørn, D., Grove, J., Schendel, D., Schieve, L., Sværke, C., Jacobsson, B., Uldall, P. V., Ernst, E., Thorsen, P., 8.2010, "Multiplicity and early gestational age contribute to an increased risk of cerebral palsy from assisted conception: a population-based cohort study", Human Reproduction, vol. 25, nr. 8, s. 2115-23. Journal article
• Lamy, P., Wiuf, C., Ørntoft, T. F., Andersen, C. L., 5.12.2010, "Rseg - an R package to optimize segmentation of SNP array data", Bioinformatics. Journal article
• Andersen, C. L., Lamy, P., Thorsen, K., Kjeldsen, E., Wikman, F., Villesen, P., Øster, B., Laurberg, S., Ørntoft, T. F., 10.12.2010, "Frequent genomic loss at chr16p13.2 is associated with poor prognosis in colorectal cancer", International Journal of Cancer. Journal article
• Stukenbrock, E., Jørgensen, F., Zala, M., Hansen, T. T., McDonald, B. A., Schierup, M. H., 23.12.2010, "Whole-genome and chromosome evolution associated with host adaptation and speciation of the wheat pathogen Mycosphaerella graminicola", P L o S Genetics, vol. 23, nr. 6. Journal article
• Kesmodel, U. S., Underbjerg, M., Kilburn, T. R., Bakketeig, L. S., Mortensen, E. L., Landrø, N. I., Schendel, D., Bertrand, J., Grove, J., Ebrahim, S., Thorsen, P., 2010, "Lifestyle during pregnancy: neurodevelopmental effects at 5 years og age", Scandinavian Journal of Public Health, vol. 38, nr. 2, s. 208-219. Journal article
• Knudsen, M., Wiuf, C. H., 2010, "The CATH Database", Human Genomics (Online). Journal article
• 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, vol. 56, nr. 6, s. 563-77. Journal article
• Nyegaard, M., Demontis, D., Foldager, L., Hedemand, A., Flint, T. J., Sørensen, K. M., Andersen, P. S., Nordentoft, M., Werge, T., Pedersen, C. B., Hougaard, D. M., Mortensen, P. B., Mors, O., Børglum, A. D., 2010, "CACNA1C (rs1006737) is associated with schizophrenia", Molecular Psychiatry, vol. 15, nr. 2, s. 119-21. Journal article
• Sjödin, P., Bataillon, T., Schierup, M. H., 2010, "Insertion and deletion processes in recent human history", P L o S One, vol. 5, nr. 1, s. e8650. Journal article
• 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, vol. 27, nr. 1, s. 11-20. Journal article
• Lauritsen, M. B., Jørgensen, M., Madsen, K. M., Lemcke, S., Toft, S., Grove, J., Schendel, D. E., Thorsen, P., 2010, "Validity of childhood autism in the Danish Psychiatric Central Register: Findings from a cohort sample born 1990-1999", Journal of Autism and Developmental Disorders, vol. 40, nr. 2, s. 139-148. Journal article
• Madsen, B. E., Villesen, P., Wiuf, C., 2010, "Short tandem repeats and genetic variation", Methods in Molecular Biology, vol. 628, s. 297-306. Journal article
• Penner, R., Knudsen, M., Wiuf, C. H., Andersen, J. E., 2010, "Fatgraph Models of Proteins", Communications on Pure and Applied Mathematics, vol. 63, nr. 10, s. 1249-1297. Journal article
• Nielsen, J., le Quach, P., Emborg, C., Foldager, L., Correll, C. U., 2010, "10-Year trends in the treatment and outcomes of patients with first-episode schizophrenia", Acta Psychiatrica Scandinavica, vol. 122, nr. 5, s. 356-66. Journal article
• Justesen, P., 2010, "Distinct Candidates Optimization". Ph.d. thesis
• 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, vol. 23, nr. 4, s. 510-21. Journal article
• Østergaard, S. D., Foldager, L., Allgulander, C., Dahl, A. A., Huuhtanen, M., Rasmussen, I., Munk-Jørgensen, P., 2010, "Psychiatric caseness is a marker of major depressive episode in general practice", Scandinavian Journal of Primary Health Care, vol. 28, nr. 4, s. 211-5. Journal article