Publications

Sort by: Date | Author | Title

Raveane, A., Aneli, S., Montinaro, F., Athanasiadis, G., Barlera, S., Birolo, G., Boncoraglio, G., Di Blasio, A. M., Di Gaetano, C., Pagani, L., Parolo, S., Paschou, P., Piazza, A., Stamatoyannopoulos, G., Angius, A., Brucato, N., Cucca, F., Hellenthal, G., Mulas, A. ... Capelli, C. (2019). Population structure of modern-day Italians reveals patterns of ancient and archaic ancestries in Southern Europe. Science Advances, 5(9), Article eaaw3492. https://doi.org/10.1126/sciadv.aaw3492

Grelet, C., Vanlierde, A., Hostens, M., Foldager, L., Salavati, M., Ingvartsen, K. L., Crowe, M., Sorensen, M. T., Froidmont, E., Ferris, C. P., Marchitelli, C., Becker, F., Larsen, T., Carter, F., GplusE Consortium & Dehareng, F. (2019). Potential of milk mid-IR spectra to predict metabolic status of cows through blood components and an innovative clustering approach. Animal, 13(3), 649-658. https://doi.org/10.1017/S1751731118001751

De Koster, J., Salavati, M., Grelet, C., Crowe, M. A., Matthews, E., O'Flaherty, R., Opsomer, G., Foldager, L., GplusE Consortium & Hostens, M. (2019). Prediction of metabolic clusters in early lactation dairy cows using models based on milk biomarkers. Journal of Dairy Science, 102(3), 2631-2644. https://doi.org/10.3168/jds.2018-15533

Gruening, B., Sallou, O., Moreno, P., da Veiga Leprevost, F., Ménager, H., Søndergaard, D., Röst, H., Sachsenberg, T., O'connor, B., Madeira, F., Del Angel, V. D., Crusoe, M. R., Varma, S., Blankenberg, D., Jimenez, R. C., BioContainers Community & Perez-Riverol, Y. (2019). Recommendations for the packaging and containerizing of bioinformatics software: [version 2; peer review: 2 approved, 1 approved with reservations]. F1000Research, 7, Article 742. https://doi.org/10.12688/f1000research.15140.2

Kuderna, L. F. K., Lizano, E., Julia, E., Gomez-Garrido, J., Serres-Armero, A., Kuhlwilm, M., Alandes, R. A., Alvarez-Estape, M., Juan, D., Simon, H., Alioto, T., Gut, M., Gut, I., Schierup, M. H., Fornas, O. & Marques-Bonet, T. (2019). Selective single molecule sequencing and assembly of a human Y chromosome of African origin. Nature Communications, 10(1), Article 4. https://doi.org/10.1038/s41467-018-07885-5

Warrier, V., Toro, R., Won, H., Leblond, C. S., Cliquet, F., Delorme, R., De Witte, W., Bralten, J., Chakrabarti, B., Børglum, A. D., Grove, J., Poelmans, G., Hinds, D. A., Bourgeron, T. & Baron-Cohen, S. (2019). Social and non-social autism symptoms and trait domains are genetically dissociable. Communications Biology, 2(1), Article 328. https://doi.org/10.1038/s42003-019-0558-4

Speed, D. & Balding, D. J. (2019). SumHer better estimates the SNP heritability of complex traits from summary statistics. Nature Genetics, 51(2), 277-284. https://doi.org/10.1038/s41588-018-0279-5

Kongsted, H., Foldager, L. & Sørensen, J. T. (2019). Tail bites in free-range based finisher pig systems: prevalence and risk factors. Abstract from 11th symposium of porcine health management, Utrecht, Netherlands.

Rogers, J., Raveendran, M., Alan Harris, R., Mailund, T., Leppälä, K., Athanasiadis, G., Schierup, M. H., Cheng, J., Munch, K., Walker, J. A., Konkel, M. K., Jordan, V., Steely, C. J., Beckstrom, T. O., Bergey, C., Burrell, A., Schrempf, D., Noll, A., Kothe, M. ... Baboon Genome Analysis Consortium (2019). The comparative genomics and complex population history of Papio baboons. Science Advances, 5(1), Article 6947. https://doi.org/10.1126/sciadv.aau6947

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

Duszynska, D., Vilhjalmsson, B., Castillo Bravo, R., Swamidatta, S., Juenger, T. E., Donoghue, M. T. A., Comte, A., Nordborg, M., Sharbel, T. F., Brychkova, G., McKeown, P. C. & Spillane, C. (2019). Transgenerational effects of inter-ploidy cross direction on reproduction and F2 seed development of Arabidopsis thaliana F1 hybrid triploids. Plant Reproduction, 32(3), 275-289. https://doi.org/10.1007/s00497-019-00369-6

Krogh, M. A., Enemark, P. S. & Foldager, L. (2019). Unsupervised outlier detection in questionnaire data. Poster session presented at Annunal Conference of the Society for Veterinary Epidemiology and Preventive Medicine (SVEPM), Utrecht, Netherlands.

Gaspar, H. A., Gerring, Z., Hübel, C., Middeldorp, C. M., Derks, E. M., Breen, G. & Major Depressive Disorder Working Group of the Psychiatric Genomics Consortium (2019). Using genetic drug-target networks to develop new drug hypotheses for major depressive disorder. Translational Psychiatry, 9(1), Article 117. https://doi.org/10.1038/s41398-019-0451-4

Hammami, H., Mota, R. R., Vanderick, S., Naderi, S., Bastin, C., Gengler, N. & GplusE Consortium (2019). Using milk MIR spectra to identify candidate genes associated with climate--smart traits in cattle. In Book of Abstracts of the 70th Annual Meeting of the European Federation of Animal Science (Vol. 25, pp. 607). Wageningen Academic Publishers. https://doi.org/10.3920/978-90-8686-890-2

Soyeurt, H., Froidmont, E., Dufrasne, I., Wang, Z., Gengler, N., Dehareng, F., GplusE Consortium & Grelet, C. (2019). Validation of the prediction of body weight from dairy cow characteristics and milk MIR spectra. In Book of Abstracts of the 70th Annual Meeting of the European Federation of Animal Science (Vol. 25, pp. 606). Wageningen Academic Publishers. https://doi.org/10.3920/978-90-8686-890-2

Riber, A. B., Foldager, L. & Tahamtani, F., (2019). Validitet og pålidelighed af Øko-metoden anvendt til fjerdragtsbedømmelse hos æglæggere, No. 2019-760-001051, 5 p., Sept 16, 2019.

Hannon, E., Schendel, D., Ladd-Acosta, C., Grove, J., Hansen, C. S., Hougaard, D. M., Bresnahan, M., Mors, O., Hollegaard, M. V., Bækvad-Hansen, M., Hornig, M., Mortensen, P. B., Børglum, A. D., Werge, T., Pedersen, M. G., Nordentoft, M., Buxbaum, J. D., Fallin, M. D., Bybjerg-Grauholm, J. ... Mill, J. (2019). Variable DNA methylation in neonates mediates the association between prenatal smoking and birth weight. Philosophical Transactions of the Royal Society B: Biological Sciences, 374(1770), Article 20180120. https://doi.org/10.1098/rstb.2018.0120

Palkopoulou, E., Lipson, M., Mallick, S., Nielsen, S., Rohland, N., Baleka, S., Karpinski, E., Ivancevic, A. M., To, T.-H., Kortschak, R. D., Raison, J. M., Qu, Z., Chin, T.-J., Alt, K. W., Claesson, S., Dalén, L., MacPhee, R. D. E., Meller, H., Roca, A. L. ... Reich, D. (2018). A comprehensive genomic history of extinct and living elephants. Proceedings of the National Academy of Sciences (PNAS), 115(11), E2566-E2574. https://doi.org/10.1073/pnas.1720554115

Jordan, V. E., Walker, J. A., Beckstrom, T. O., Steely, C. J., McDaniel, C. L., St Romain, C. P., The Baboon Genome Analysis Consortium, Worley, K. C., Phillips-Conroy, J., Jolly, C. J., Rogers, J., Konkel, M. K. & Batzer, M. A. (2018). A computational reconstruction of Papio phylogeny using Alu insertion polymorphisms. Mobile DNA, 9(1), Article 13. https://doi.org/10.1186/s13100-018-0118-3

Castagnini, A., Foldager, L. & Berrios, G. E. (2018). Acute polymorphic psychotic disorder: concepts, empirical findings and challenges for ICD-11. Journal of Nervous and Mental Disease, 206(11), 887-895. https://doi.org/10.1097/NMD.0000000000000882

Grelet, C., Froidmont, E., Hostens, M., Vanlierde, A., Foldager, L., Salavati, M., Ingvartsen, K. L., Sørensen, M. T., Crowe, M., Ferris, C. P., Marchitelli, C., Becker, F., GplusE Consortium & Dehareng, F. (2018). A first approach to predict nitrogen efficiency of dairy cows through milk FT-MIR spectra. In EAAP 2018 Book of abstracts (pp. 477-477)

Nielsen, K. L., Villesen, P. & Johannsen, M. (2018). Aging of Biological Traces - A Forensic Application. Poster session presented at 1st Aarhus Metabolomics Symposium, Aarhus, Denmark.

The Baboon Genome Analysis Consortium (2018). Analysis of lineage-specific Alu subfamilies in the genome of the olive baboon, Papio anubis. Mobile DNA, 9(1), Article 10. https://doi.org/10.1186/s13100-018-0115-6

Bertl, J., Guo, Q., Juul, M., Besenbacher, S., Nielsen, M. M., Hornshøj, H., Pedersen, J. S. & Hobolth, A. (2018). A site specific model and analysis of the neutral somatic mutation rate in whole-genome cancer data. BMC Bioinformatics , 19(147), Article 147. https://doi.org/10.1186/s12859-018-2141-2

Greve, A. N., Jepsen, J. R. M., Mortensen, E. L., Uher, R., Mackenzie, L., Foldager, L., Gantriis, D. L. L., Burton, B. K., Ellersgaard, D. V., Christiani, C. J., Spang, K. S., Hemager, N., Henriksen, M. T., Zahle, K. K., Stadsgaard, H. B., Thorup, A. A. E., Nordentoft, M., Plessen, K., Mors, O. & Bliksted, V. F. (2018). Associations between intelligence, verbal working memory and processing speed in parents with schizophrenia or bipolar disorder and their 7-year old offspring. Schizophrenia Bulletin, 44(Suppl_1), S252-S252.

Matey-Hernandez, M. L., Brunak, S., Izarzugaza, J. M. G. & Danish Pan-Genome Consortium (Jakob Grove, member of -) (2018). Benchmarking the HLA typing performance of Polysolver and Optitype in 50 Danish parental trios. BMC Bioinformatics, 19(1), Article 239. https://doi.org/10.1186/s12859-018-2239-6

Gao, S., Hu, X., Xu, F., Gao, C., Xiong, K., Zhao, X., Chen, H., Zhao, S., Wang, M., Fu, D., Zhao, X., Bai, J., Mao, L., Li, B., Wu, S., Wang, J., Li, S., Yang, H., Bolund, L. & Pedersen, C. N. S. (2018). BS-virus-finder: virus integration calling using bisulfite sequencing data. GigaScience, 7(1), 1-7. https://doi.org/10.1093/gigascience/gix123

Søndergaard, D. A. (2018). Classification and analysis of biological data.

Hartfield, M., Wright, S. I. & Agrawal, A. F. (2018). Coalescence and linkage disequilibrium in facultatively sexual diploids. Genetics, 210(2), 683-701. https://doi.org/10.1534/genetics.118.301244

GERAD1 Consortium: (2018). Common schizophrenia alleles are enriched in mutation-intolerant genes and in regions under strong background selection. Nature Genetics, 50(3), 381-389. https://doi.org/10.1038/s41588-018-0059-2

Krogh, M. A., Ettema, J., Østergaard, S. & GplusE Consortium (2018). Cost/benefit analyses on indicator-based intervention on physiological imbalance in dairy cows. 471-471. Poster session presented at The 15th International Symposium of Veterinary Epidemiology and Economic. , Chiang Mai, Thailand.

Mineur, A., Mota, R., Gengler, N., Vanderick, S., Hammami, H. & GplusE Consortium (2018). Defining and using novel milk composition based heat stress resilience traits in the context of genomic selection for more robust dairy cows in Wallonia. In J. Bryant, M. Burke, R. Cook, B. Harris, C. Mosconi & B. Wickham (Eds.), Proceedings of the ICAR Conference (Vol. 23, pp. 229-234) https://www.icar.org/wp-content/uploads/2018/07/ICAR-Technical-Series-23-Auckland-2018-Proceedings.pdf

Skov, L., Hui, R., Shchur, V., Hobolth, A., Scally, A., Schierup, M. H. & Durbin, R. (2018). Detecting archaic introgression using an unadmixed outgroup. PLoS Genetics, 14(9), Article e1007641. https://doi.org/10.1371/journal.pgen.1007641

Hartfield, M. (2018). Digest: Effects of spatially-spreading adaptive mutations on genome-wide diversity. Evolution, 72(4), 1015-1016. https://doi.org/10.1111/evo.13462

Skakkebæk, A., Nielsen, M. M., Trolle, C., Vang, S., Hornshøj, H., Hedegaard, J., Wallentin, M., Bojesen, A., Hertz, J. M., Fedder, J., Østergaard, J. R., Pedersen, J. S. & Gravholt, C. H. (2018). DNA hypermethylation and differential gene expression associated with Klinefelter syndrome. Scientific Reports, 8(1), Article 13740. https://doi.org/10.1038/s41598-018-31780-0

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

Lucotte, E. A., Skov, L., Jensen, J. M., Coll Macià, M., Munch, K. & Schierup, M. H. (2018). Dynamic Copy Number Evolution of X- and Y-Linked Ampliconic Genes in Human Populations. Genetics, 209(3), 907-920. https://doi.org/10.1534/genetics.118.300826

Hannon, E., Schendel, D., Ladd-Acosta, C., Grove, J., Hansen, C. S., Andrews, S. V., Hougaard, D. M., Bresnahan, M., Mors, O., Hollegaard, M. V., Bækvad-Hansen, M., Hornig, M., Mortensen, P. B., Børglum, A. D., Werge, T., Pedersen, M. G., Nordentoft, M., Buxbaum, J., Daniele Fallin, M. ... iPSYCH-Broad ASD Group (Mette Nyegaard, Per Qvist, Jane Hvarregaard Christensen - members of -) (2018). Elevated polygenic burden for autism is associated with differential DNA methylation at birth. Genome Medicine, 10(1), Article 19. https://doi.org/10.1186/s13073-018-0527-4

the iPSYCH-Broad autism group & the 23andMe Research Team (2018). Genome-wide analyses of self-reported empathy: Correlations with autism, schizophrenia, and anorexia nervosa. Translational Psychiatry, 8(1), Article 35. https://doi.org/10.1038/s41398-017-0082-6

Generation Scotland & Major Depressive Disorder Working Group of the Psychiatric Genomics Consortium (2018). Genome-wide interaction study of a proxy for stress-sensitivity and its prediction of major depressive disorder. PLoS One, 13(12), Article e0209160. https://doi.org/10.1371/journal.pone.0209160

Ernst, E. H., Franks, S., Hardy, K., Villesen, P. & Lykke-Hartmann, K. (2018). Granulosa cells from human primordial and primary follicles show differential global gene expression profiles. Human Reproduction, 33(4), 666-679. https://doi.org/10.1093/humrep/dey011

Finucane, H. K., Reshef, Y. A., Anttila, V., Slowikowski, K., Gusev, A., Byrnes, A., Gazal, S., Loh, P.-R., Lareau, C., Shoresh, N., Genovese, G., Saunders, A., Macosko, E., Pollack, S., Brainstorm Consortium, Perry, J. R. B., Buenrostro, J. D., Bernstein, B. E., Raychaudhuri, S. ... Price, A. L. (2018). Heritability enrichment of specifically expressed genes identifies disease-relevant tissues and cell types. Nature Genetics, 50(4), 621-629. https://doi.org/10.1038/s41588-018-0081-4

Kongsted, H., Foldager, L. & Sørensen, J. T., (2018). Identifikation af mulighederne for at minimere forekomsten af læsioner hos økologiske svin og frilandssvin (del 2), No. 2018-760-000666, 28 p., Jun 04, 2018.

Bailey, S. F., Guo, Q. & Bataillon, T. (2018). Identifying Drivers of Parallel Evolution: A Regression Model Approach. Genome Biology and Evolution, 10(10), 2801-2812. https://doi.org/10.1093/gbe/evy210

Feyera, T., Pedersen, T. F., Larsen, U. K., Foldager, L. & Theil, P. K. (2018). Impact of sow energy status during farrowing on farrowing kinetics, frequency of stillborn piglets, and farrowing assistance: Sow energy status and farrowing kinetics. Journal of Animal Science, 96(6), 2320–2331. Article 96. https://doi.org/10.1093/jas/sky141

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

Mollion, M. (2018). Inference on adaptation from population genomics data.

Foldager, L., Liu, Y., Pedersen, H. S., Larsen, K. E., Kristensen, K., Callesen, H. & Sørensen, M. T. (2018). In-vitro fertilization and in-vitro embryo culture in mouse as a reprotoxicity model for xenobiotics: some considerations on how to analyse data and present results. In P. Linde (Ed.), Symposium i anvendt statistik 2018 (pp. 188-199)

Ehlers, B., Holmstrup, M., Schmidt, I. K., Sørensen, J. G. & Bataillon, T. (2018). Joint impact of competition, summer precipitation, and maternal effects on survival and reproduction in the perennial Hieracium umbellatum. Evolutionary Ecology, 32(5), 529-545. https://doi.org/10.1007/s10682-018-9953-4

Displaying results 451 to 500 out of 1384

Revised 13.01.2026

Palle Villesen