Rasmus Nielsen
Professor
Section for Geogenetics
Øster Voldgade 5-7, 1350 København K
Section for Geogenetics
Øster Voldgade 5-7
1350 København K
- Published
Mutation-selection models of codon substitution and their use to estimate selective strengths on codon usage
Yang, Z. & Nielsen, Rasmus, 2008, In: Molecular Biology and Evolution. 25, 3, p. 568-79 11 p.Research output: Contribution to journal › Journal article › Research › peer-review
Natural Selection Reduced Diversity on Human Y Chromosomes
Wilson Sayres, M. A., Lohmueller, K. E. & Nielsen, Rasmus, 2014, In: PLOS Genetics. 10, 1, 12 p., e1004064.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Natural selection affects multiple aspects of genetic variation at putatively peutral sites across the human genome
Lohmueller, K. E., Albrechtsen, Anders, Li, Y., Kim, S. Y., Korneliussen, Thorfinn Sand, Vinckenbosch, N., Tian, G., Huerta-Sanchez, E., Feder, A. F., Grarup, Niels, Jørgensen, T., Jiang, T., Witte, D. R., Sandbæk, A., Hellmann, I., Lauritzen, T., Hansen, Torben, Pedersen, Oluf Borbye, Wang, J. & Nielsen, Rasmus, 2011, In: P L o S Genetics. 7, 10, 15 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Natural selection and the distribution of identity-by-descent in the human genome
Albrechtsen, Anders, Moltke, Ida & Nielsen, Rasmus, 2010, In: Genetics. 186, 1, p. 295-308 14 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Natural selection on genes related to cardiovascular health in high-altitude adapted Andeans
Crawford, J. E., Amaru, R., Song, J., Julian, C. G., Racimo, Fernando, Cheng, J. Y., Guo, X., Yao, J., Ambale-Venkatesh, B., Lima, J. A., Rotter, J. I., Stehlik, J., Moore, L. G., Prchal, J. T. & Nielsen, Rasmus, 2 Nov 2017, In: American Journal of Human Genetics. 101, 5, p. 752-767 16 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Natural selection on protein-coding genes in the human genome
Bustamente, C. D., Fledel-Alon, A., Williamson, S., Nielsen, Rasmus, Hubisz, M., Glanowski, S., Tanenbaum, D. M., White, T. J., Sninsky, J. J., Hernandez, R. D., Civello, D., Adams, M. D., Cargill, M. & Clark, A. G., 2005, In: Nature. 437, 7062, p. 1153-1157Research output: Contribution to journal › Letter › Research
- Published
Natural selection on the Arabidopsis thaliana genome in present and future climates
Exposito-Alonso, M., Burbano, H. A., Bossdorf, O., Nielsen, R., Weigel, D., Exposito-Alonso, M., Gomez Rodriguez, R., Barragan, C., Capovilla, G., Chae, E., Devos, J., Dogan, E. S., Friedemann, C., Gross, C., Lang, P., Lundberg, D., Middendorf, V., Kageyama, J., Karasov, T., Kersten, S. & 23 others, , 2019, In: Nature. 573, 7772, p. 126-129Research output: Contribution to journal › Letter › Research › peer-review
- Published
No statistical evidence for an effect of CCR5-∆32 on lifespan in the UK Biobank cohort
Maier, R., Akbari, A., Wei, X., Patterson, N., Nielsen, Rasmus & Reich, D., 2020, In: Nature Medicine. 26, 2, p. 178-180 3 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
North African fox genomes show signatures of repeated introgression and adaptation to life in deserts
L. Rocha, J., Silva, P., Santos, N., Nakamura, M., Afonso, S., Qninba, A., Boratynski, Z., Sudmant, P. H., Brito, J. C., Nielsen, Rasmus & Godinho, R., 2023, In: Nature Ecology and Evolution. 7, 8, p. 1267-1286Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Novel Method To Identify Source-Associated Phylogenetic Clustering Shows that Listeria monocytogenes Includes Niche-Adapted Clonal Groups with Distinct Ecological Preferences
Nightingale, K. K., Lyles, K., Ayodele, M., Jalan, P., Nielsen, Rasmus & Wiedmann, M., 2006, In: Journal of Clinical Microbiology. 44, 10, p. 3742-3751Research output: Contribution to journal › Journal article › Research › peer-review
Number of genes controlling a quantitative trait in a hybrid zone of the aposematic frog ranitomeya imitator
Vestergaard, J. S., Twomey, E., Larsen, Rasmus Stenbak, Summers, K. & Nielsen, Rasmus, 22 May 2015, In: Proceedings of the Royal Society B: Biological Sciences. 282, 1807, 20141950.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
On detecting incomplete soft or hard selective sweeps using haplotype structure
Ferrer-Admetlla, A., Liang, M., Korneliussen, Thorfinn Sand & Nielsen, Rasmus, 2014, In: Molecular Biology and Evolution. 31, 5, p. 1275-1291 17 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
On the Distribution of Tract Lengths During Adaptive Introgression
Shchur, V., Svedberg, J., Medina, P., Corbett-Detig, R. & Nielsen, Rasmus, 2020, In: G3: Genes, Genomes, Genetics (Bethesda). 10, 10, p. 3663-3673 11 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
On the number of siblings and p-th cousins in a large population sample
Shchur, V. & Nielsen, Rasmus, 1 Nov 2018, In: Journal of Mathematical Biology. 77, 5, p. 1279-1298Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Parallel adaptation of rabbit populations to myxoma virus
Alves, J. M., Carneiro, M., Cheng, J. Y., Matos, A. L. D., Rahman, M. M., Loog, L., Campos, P. F., Wales, N., Eriksson, A., Manica, A., Strive, T., Graham, S. C., Afonso, S., Bell, D. J., Belmont, L., Day, J. P., Fuller, S. J., Marchandeau, S., Palmer, W. J., Queney, G. & 8 others, , 2019, In: Science. 363, 6433Research output: Contribution to journal › Journal article › Research › peer-review
Passage Adaptation Correlates With the Reduced Efficacy of the Influenza Vaccine
Chen, H., Alvarez, J. J. S., Ng, S. H., Nielsen, Rasmus & Zhai, W., 2019, In: Clinical Infectious Diseases. 69, 7, p. 1198-1204 7 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Patterns of mutation and selection at synonymous sites in Drosophila
Singh, N. D., Bauer DuMont, V. L., Hubisz, M. J., Nielsen, Rasmus & Aquadro, C. F., 2007, In: Molecular Biology and Evolution. 24, 12, p. 2687-97 10 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Patterns of positive selection in six Mammalian genomes
Kosiol, C., Vinar, T., da Fonseca, R. R., Hubisz, M. J., Bustamante, C. D., Nielsen, Rasmus & Siepel, A., 2008, In: PLoS Genetics. 4, 8, p. e1000144Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Peopling the Americas
Nielsen, Rasmus, 2005, In: European Journal of Human Genetics. 13, 10, p. 1100-1101Research output: Contribution to journal › Comment/debate › Research
Pervasive introgression facilitated domestication and adaptation in the Bos species complex
Wu, D., Ding, X. D., Wang, S., Wójcik, J. M., Zhang, Y., Tokarska, M., Li, Y., Wang, M. S., Faruque, O., Nielsen, Rasmus, Zhang, Q. & Zhang, Y., 2018, In: Nature Ecology and Evolution. 2, 7, p. 1139-1145 7 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Phenotypic Convergence Is Not Mirrored at the Protein Level in a Lizard Adaptive Radiation
Corbett-Detig, R. B., Russell, S. L., Nielsen, Rasmus & Losos, J., 2020, In: MOLECULAR BIOLOGY AND EVOLUTION . 37, 6, p. 1604-1614 11 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Phylogenetic ANOVA: the expression variance and evolution model for quantitative trait evolution
Rohlfs, R. V. & Nielsen, Rasmus, 2015, In: Systematic Biology. 64, 5, p. 695-708 14 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Physiological and Genetic Adaptations to Diving in Sea Nomads
Ilardo, M. A., Moltke, Ida, Korneliussen, Thorfinn Sand, Cheng, J., Stern, A. J., Racimo, Fernando, Damgaard, P. D. B., Sikora, Martin, Seguin-Orlando, A., Rasmussen, Simon, van den Munckhof, I. C. L., ter Horst, R., Joosten, L. A. B., Netea, M. G., Salingkat, S., Nielsen, Rasmus & Willerslev, Eske, 2018, In: Cell. 173, 3, p. 569-580 12 p., e15.Research output: Contribution to journal › Journal article › Research › peer-review
Population Genomics of Variegated Toad-Headed Lizard Phrynocephalus versicolor and Its Adaptation to the Colorful Sand of the Gobi Desert
Jin, Y., Aguilar-Gómez, D., Brandt, D. Y. C., Square, T. A., Li, J., Liu, Z., Wang, T., Sudmant, P. H., Miller, C. T. & Nielsen, Rasmus, 2022, In: Genome Biology and Evolution. 14, 7, 14 p., evac076.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Population genetic analysis of shotgun assemblies of genomic sequences from multiple individuals
Hellmann, I., Mang, Y., Gu, Z., Li, P., de la Vega, F. M., Clark, A. G. & Nielsen, Rasmus, 2008, In: Genome Research. 18, 7, p. 1020-9 9 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Population genomics of bronze age Eurasia
Allentoft, M. E., Sikora, M., Sjogren, K-G., Rasmussen, S., Rasmussen, M., Stenderup, J., Damgaard, P. D. B., Schroeder, H., Ahlstrom, T., Vinner, L., Malaspinas, A. S., Margaryan, A., Higham, T., Chivall, D., Lynnerup, N., Harvig, L. L., Baron, J., Della Casa, P., Dabrowski, P., Duffy, P. R. & 46 others, , 2015, In: Nature Genetics. 522, 7555, p. 167-172 6 p.Research output: Contribution to journal › Journal article › Research › peer-review
Population genomics of finless porpoises reveal an incipient cetacean species adapted to freshwater
Zhou, X., Guang, X., Sun, D., Xu, S., Li, M., Seim, I., Jie, W., Yang, L., Zhu, Q., Xu, J., Gao, Q., Kaya, A., Dou, Q., Chen, B., Ren, W., Li, S., Zhou, K., Gladyshev, V. N., Nielsen, R., Fang, X. & 1 others, , 2018, In: Nature Communications. 9, 8 p., 1276.Research output: Contribution to journal › Journal article › Research › peer-review
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Population genomics of post-glacial western Eurasia
Allentoft, M. E., Sikora, M., Refoyo-Martínez, A., Irving-Pease, E. K., Fischer, A., Barrie, W., Ingason, A., Stenderup, J., Sjögren, K-G., Pearson, A., da Mota, B. S., Paulsson, B. S., Halgren, A., Macleod, R., Jørkov, M. L. S., Demeter, F., Sørensen, L., Nielsen, P. O., Henriksen, R. A., Vimala, T. & 144 others, , 2024, In: Nature. 625, 7994, p. 301-311Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Population genomics of the Viking world: [incl. correction]
Margaryan, A., Lawson, D. J., Sikora, M., Racimo, F., Rasmussen, S., Moltke, I., Cassidy, L. M., Jørsboe, E., Ingason, A., Pedersen, M. W., Korneliussen, T., Wilhelmson, H., Buś, M. M., de Barros Damgaard, P., Martiniano, R., Renaud, G., Bhérer, C., Moreno-Mayar, J. V., Fotakis, A. K., Allen, M. & 30 others, , 2020, In: Nature. 585, 7825, p. 390-396 7 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Population genomics reveal recent speciation and rapid evolutionary adaptation in polar bears
Liu, S., Lorenzen, E., Fumagalli, M., Li, B., Harris, K., Xiong, Z., Zhou, L., Korneliussen, T. S., Somel, M., Babbitt, C., Wray, G., Li, J., He, W., Wang, Z., Fu, W., Xiang, X., Morgan, C. C., Doherty, A., O'Connell, M. J., McInerney, J. O. & 9 others, , 2014, In: Cell. 157, 4, p. 785-794 10 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Population size changes reshape genomic patterns of diversity
Pool, J. E. & Nielsen, Rasmus, 2007, In: Evolution. 61, 12, p. 3001-6 5 p.Research output: Contribution to journal › Journal article › Research › peer-review
Positive Selection in the Human Genome Inferred from Human-Chimp-Mouse Orthologous Gene Alignments
Clark, A. G., Glanowski, S., Nielsen, Rasmus, Thomas, P., Kejariwal, A., Todd, M. J., Tanenbaum, D. M., Civello, D., Lu, F., Murphy, B., Ferriera, S., Wang, G., Zheng, X., White, T. J., Sninsky, J. J., Adams, M. D. & Cargill, M., 2003, In: Cold Spring Harbor Symposia on Quantitative Biology. 68, 1, p. 479-486 8 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Positive selection on apoptosis related genes
Rodrigues da Fonseca, Rute Andreia, Kosiol, C., Vinař, T., Siepel, A. & Nielsen, Rasmus, 2010, In: FEBS Letters. 584, 3, p. 469-476 8 p.Research output: Contribution to journal › Review › Research › peer-review
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Postglacial viability and colonization in North America’s ice-free corridor
Pedersen, Mikkel Winther, Ruter, Anthony Henry, Schweger, C., Friebe, H., Staff, R. A., Kjeldsen, Kristian Kjellerup, Zepeda Mendoza, M. L., Beaudoin, A. B., Zutter, C., Larsen, Nicolaj Krog, Potter, B. A., Nielsen, Rasmus, Rainville, R. A., Orlando, L. A. A., Meltzer, D. J., Kjær, Kurt H. & Willerslev, Eske, 2016, In: Nature. 537, 7618, p. 45–49 5 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Predicting Egg Passage Adaptations to Design Better Vaccines for the H3N2 Influenza Virus
Liu, Y., Chen, H., Duan, W., Zhang, X., He, X., Nielsen, Rasmus, Ma, L. & Zhai, W., 2022, In: Viruses. 14, 9, 16 p., 2065.Research output: Contribution to journal › Journal article › Research › peer-review
Pronounced somatic bottleneck in mitochondrial DNA of human hair
Barrett, A., Arbeithuber, B., Zaidi, A., Wilton, P., Paul, I. M., Nielsen, Rasmus & Makova, K. D., 2020, In: Philosophical Transactions of the Royal Society B: Biological Sciences. 375, 1790, 11 p., 20190175.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Proportionally more deleterious genetic variation in European than in African populations
Lohmueller, K. E., Indap, A. R., Schmidt, S., Boyko, A. R., Hernandez, R. D., Hubisz, M. J., Sninsky, J. J., White, T. J., Sunyaev, S. R., Nielsen, Rasmus, Clark, A. G. & Bustamante, C. D., 2008, In: Nature. 451, 7181, p. 994-7 3 p.Research output: Contribution to journal › Journal article › Research › peer-review
Q A: Who is H. sapiens really, and how do we know?
Liang, M. & Nielsen, Rasmus, 31 Mar 2011, In: B M C Biology. 9Research output: Contribution to journal › Journal article › Research › peer-review
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Q&A: where did the Neanderthals go?
Harris, K. & Nielsen, Rasmus, 1 Sep 2017, In: BMC Biology. 15, 3 p., 73.Research output: Contribution to journal › Comment/debate › Research › peer-review
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Quantifying population genetic differentiation from next-generation sequencing data
Fumagalli, M., Vieira, Filipe Garrett, Korneliussen, Thorfinn Sand, Linderoth, T., Huerta-Sánchez, E., Albrechtsen, Anders & Nielsen, Rasmus, Nov 2013, In: Genetics. 195, 3, p. 979-992 14 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
REDUCING AN INTELLECTUAL DEFICIT: COALESCENT THEORY FOR (ALMOST) EVERYONE
Nielsen, Rasmus, 2006, In: Evolution. 60, 1, p. 208-209Research output: Contribution to journal › Review › Research
REPdenovo: Inferring De Novo repeat motifs from short sequence reads
Chu, C., Nielsen, Rasmus & Wu, Y., 2016, In: PLoS ONE. 11, 3, 17 p., e0150719.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Radiation and speciation of pelagic organisms during periods of global warming: the case of the common minke whale, Balaenoptera acutorostrata
Pastene, L. A., Goto, M., Kanda, N., Zerbini, A. N., Kerem, D., Watanabe, K., Bessho, Y., Hasegawa, M., Nielsen, Rasmus, Larsen, F. & Palsbøll, P. J., 2007, In: Molecular Ecology. 16, 7, p. 1481-1495 15 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Radiation of extant Cetaceans Driven by Restructuring of the Oceans
Steeman, M. E., Hebsgaard, M. B., Fordyce, J., Syw, H., Rabovsky, D., Nielsen, Rasmus, Rahbek, Carsten, Glenner, Henrik, Sørensen, Martin Vinther & Willerslev, Eske, 2009, In: Systematic Biology. 58, p. 573-585 12 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Recent and ongoing selection in the human genome
Nielsen, Rasmus, Hellmann, I., Hubisz, M., Bustamante, C. & Clark, A. G., 2007, In: Nature Reviews. Genetics. 8, 11, p. 857-68 11 p.Research output: Contribution to journal › Journal article › Research › peer-review
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Relatedness mapping and tracts of relatedness for genome-wide data in the presence of linkage disequilibrium
Albrechtsen, Anders, Korneliussen, Thorfinn Sand, Moltke, Ida, van Overseem Hansen, T., Nielsen, Finn Cilius & Nielsen, Rasmus, 2009, In: Genetic Epidemiology. 33, 3, p. 266-274Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Resequencing 50 accessions of cultivated and wild rice yields markers for identifying agronomically important genes
Xu, X., Liu, X., Ge, S., Jensen, J. D., Hu, F., Li, X., Dong, Y., Gutenkunst, R. N., Fang, L., Huang, L., Li, J., He, W., Zhang, G., Zheng, X., Zhang, F., Li, Y., Yu, C., Kristiansen, K., Zhang, X., Wang, J. & 5 others, , 2012, In: Nature Biotechnology. 30, 1, p. 105-111 7 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Resequencing of 200 human exomes identifies an excess of low-frequency non-synonymous coding variants
Li, Y., Vinckenbosch, N., Tian, G., Huerta-Sanchez, E., Jiang, T., Jiang, H., Albrechtsen, A., Andersen, G., Cao, H., Korneliussen, T. S., Grarup, N., Guo, Y., Hellman, I., Jin, X., Li, Q., Liu, J., Liu, X., Sparsø, T., Tang, M., Wu, H. & 18 others, , 2010, In: Nature Genetics. 42, 11, p. 969-72 4 p.Research output: Contribution to journal › Journal article › Research › peer-review
Reticulate speciation and barriers to introgression in the anopheles gambiae species complex
Crawford, J. E., Riehle, M. M., Guelbeogo, W. M., Gneme, A., Sagnon, N., Vernick, K. D., Nielsen, Rasmus & Lazzaro, B. P., 1 Nov 2015, In: Genome Biology and Evolution. 7, 11, p. 3116-3131 16 p.Research output: Contribution to journal › Journal article › Research › peer-review
Robustness of the Estimator of the Index of Dispersion for DNA Sequences
Nielsen, Rasmus, 1 Jun 1997, In: Molecular Phylogenetics and Evolution. 7, 3, p. 346-351 6 p.Research output: Contribution to journal › Journal article › Research › peer-review
ID: 3311
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Natural selection affects multiple aspects of genetic variation at putatively peutral sites across the human genome
Research output: Contribution to journal › Journal article › Research › peer-review
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Genetic architecture of vitamin B12 and folate levels uncovered applying deeply sequenced large datasets
Research output: Contribution to journal › Journal article › Research › peer-review
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SNP calling, genotype calling, and sample allele frequency estimation from new-generation sequencing data
Research output: Contribution to journal › Journal article › Research › peer-review
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