Rasmus Nielsen

Rasmus Nielsen

Professor

ORCID: 0000-0003-0513-6591

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  1. Human-Mediated Admixture and Selection Shape the Diversity on the Modern Swine (Sus scrofa) Y Chromosomes

    Ai, H., Zhang, M., Yang, B., Goldberg, A., Li, W., Ma, J., Brandt, D., Zhang, Z., Nielsen, Rasmus & Huang, L., 2021, In: Molecular Biology and Evolution. 38, 11, p. 5051-5065 15 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  2. Published

    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. 266-274

    Research output: Contribution to journal › Journal article › Research › peer-review

  3. Published

    Exome sequencing-driven discovery of coding polymorphisms associated with common metabolic phenotypes

    Albrechtsen, A., Grarup, N., Li, Y., Sparsø, T. H., Tian, G., Cao, H., Jiang, T., Kim, S. Y., Korneliussen, T. S., Li, Q., Nie, C., Wu, R., Skotte, L., Morris, A. P., Ladenvall, C., Cauchi, S., Stancáková, A., Andersen, G., Astrup, A., Banasik, K. & 86 others, Bennett, A. J., Bolund, L., Charpentier, G., Chen, Y., Dekker, J. M., Doney, A. S. F., Dorkhan, M., Forsen, T., Frayling, T. M., Groves, C. J., Gui, Y., Hallmans, G., Hattersley, A. T., He, K., Hitman, G. A., Holmkvist, J., Huang, S., Jiang, H., Jin, X., Justesen, Johanne Marie, Kristiansen, Karsten, Kuusisto, J., Lajer, M., Lantieri, O., Li, W., Liang, H., Liao, Q., Liu, X., Ma, T., Ma, X., Manijak, M. P., Marre, M., Mokrosinski, J., Morris, A. D., Mu, B., Nielsen, A. A., Nijpels, G., Nilsson, P., Palmer, C. N. A., Rayner, N. W., Renström, F., Ribel-Madsen, R., Robertson, N., Rolandsson, O., Rossing, P., Schwartz, Thue W., Slagboom, P. E., Sterner, M., Tang, M., Tarnow, L., Tuomi, T., Van't Riet, E., van Leeuwen, N., V Varga, Tibor, Vestmar, M. A., Walker, M., Wang, B., Wang, Y., Wu, H., Xi, F., Yengo, L., Yu, C., Zhang, X., Zhang, J., Zhang, Q., Zhang, W., Zheng, H., Zhou, Y., Altshuler, D., 't Hart, L. M., Franks, P. W., Balkau, B., Froguel, P., McCarthy, M. I., Laakso, M., Groop, L., Christensen, C., Brandslund, I., Lauritzen, T., Witte, D. R., Linneberg, A., Jørgensen, T., Hansen, Torben, Wang, J., Nielsen, Rasmus & Pedersen, Oluf Borbye, 2013, In: Diabetologia. 56, 2, p. 298-310 13 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  4. Published

    A Bayesian multilocus association method: allowing for higher-order interaction in association studies

    Albrechtsen, Anders, Castella, S., Andersen, G., Hansen, T., Pedersen, O. & Nielsen, Rasmus, 2007, In: Genetics. 176, 2, p. 1197-208 11 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  5. 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

  6. Published

    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, McColl, Hugh, Margaryan, Ashot, Ilardo, M., Vaughn, Andrew Howland, Mortensen, M. F., Nielsen, A. B., Hede, M. U., Johannsen, N. N., Rasmussen, P., Vinner, Lasse, Renaud, Gabriel, Stern, A., Jensen, Theis Zetner Trolle, Scorrano, Gabriele, Schroeder, Hannes, Lysdahl, P., Ramsøe, Abigail Daisy, Skorobogatov, A., Schork, A. J., Rosengren, A., Ruter, Anthony Henry, Outram, A., Timoshenko, A. A., Buzhilova, A., Coppa, A., Zubova, A., Silva, A. M., Hansen, Anders Johannes, Gromov, A., Logvin, A., Gotfredsen, Anne Birgitte, Nielsen, B. H., González-Rabanal, B., Lalueza-Fox, C., McKenzie, C. J., Gaunitz, Charleen, Blasco, C., Liesau, C., Martinez-Labarga, C., Pozdnyakov, D. V., Cuenca-Solana, D., Lordkipanidze, D. O., En’shin, D., Salazar-García, D. C., Price, T. D., Borić, D., Kostyleva, E., Veselovskaya, E. V., Usmanova, E. R., Cappellini, Enrico, Petersen, Erik Brinch, Kannegaard, E., Radina, F., Yediay, Fulya Eylem, Duday, H., Gutiérrez-Zugasti, I., Merts, I., Potekhina, I., Shevnina, I., Altinkaya, Isin, Guilaine, J., Hansen, J., Tortosa, J. E. A., Zilhão, J., Vega, J., Pedersen, K. B., Tunia, K., Zhao, Lei, Mylnikova, L. N., Larsson, L., Metz, L., Yepiskoposyan, L., Pedersen, L., Sarti, L., Orlando, L., Slimak, L., Klassen, L., Blank, M., González-Morales, M., Silvestrini, M., Vretemark, M., Nesterova, M. S., Rykun, M., Rolfo, M. F., Szmyt, M., Przybyła, M., Calattini, M., Sablin, M., Dobisíková, M., Meldgaard, Morten, Johansen, M., Berezina, N., Card, N., Saveliev, N. A., Poshekhonova, O., Rickards, O., Lozovskaya, O. V., Gábor, O., Uldum, O. C., Aurino, P., Kosintsev, P., Courtaud, P., Ríos, P., Mortensen, P., Lotz, P., Persson, P., Bangsgaard, Pernille, de Barros Damgaard, P., Vang Petersen, P., Martinez, P. P., Włodarczak, P., Smolyaninov, R. V., Maring, R., Menduiña, R., Badalyan, R., Iversen, Rune, Turin, R., Vasilyev, S., Wåhlin, S., Borutskaya, S., Skochina, S., Sørensen, S. A., Andersen, S. H., Jørgensen, T., Serikov, Y. B., Molodin, V. I., Smrcka, V., Merts, V., Appadurai, V., Moiseyev, V., Magnusson, Y., Kjær, Kurt H., Lynnerup, Niels, Lawson, D. J., Sudmant, P. H., Rasmussen, Simon, Korneliussen, Thorfinn Sand, Durbin, R., Nielsen, Rasmus, Delaneau, O., Werge, Thomas, Racimo, Fernando, Kristiansen, Kristian & Willerslev, Eske, 2024, In: Nature. 625, 7994, p. 301-311

    Research output: Contribution to journal › Journal article › Research › peer-review

  7. Published

    100 ancient genomes show repeated population turnovers in Neolithic Denmark

    Allentoft, M. E., Sikora, M., Fischer, A., Sjögren, K-G., Ingason, A., Macleod, R., Rosengren, A., Schulz Paulsson, B., Jørkov, M. L. S., Novosolov, M., Stenderup, J., Price, T. D., Mortensen, M. F., Nielsen, A. B., Hede, M. U., Sørensen, L., Nielsen, P. O., Rasmussen, P., Jensen, T. Z. T., Refoyo-Martínez, A. & 48 others, Irving-Pease, Evan, Barrie, William, Pearson, A., Sousa da Mota, B., Demeter, Fabrice, Henriksen, Rasmus Henrik Amund, Vimala, Tharsika, McColl, Hugh, Vaughn, Andrew Howland, Vinner, Lasse, Renaud, Gabriel, Stern, A., Johannsen, N. N., Ramsøe, Abigail Daisy, Schork, A. J., Ruter, Anthony Henry, Gotfredsen, Anne Birgitte, Nielsen, B. H., Petersen, Erik Brinch, Kannegaard, E., Hansen, J., Pedersen, K. B., Pedersen, L., Klassen, L., Meldgaard, Morten, Johansen, M., Uldum, O. C., Lotz, P., Lysdahl, P., Bangsgaard, Pernille, Petersen, P. V., Maring, R., Iversen, Rune, Wåhlin, S., Sørensen, S. A., Andersen, S. H., Jørgensen, T., Lynnerup, Niels, Lawson, D. J., Rasmussen, Simon, Korneliussen, Thorfinn Sand, Kjær, Kurt H., Durbin, R., Nielsen, Rasmus, Delaneau, O., Werge, Thomas, Kristiansen, Kristian & Willerslev, Eske, 2024, In: Nature. 625, 7994, p. 329-337 9 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  8. 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, Ebel, A. V., Epimakhov, A., Frei, K., Furmanek, M., Gralak, T., Gromov, A., Gronkiewicz, S., Grupe, G., Hajdu, T., Jarysz, R., Khartanovich, V., Khokhlov, A., Kiss, V., Kolar, J., Kriiska, A., Lasak, I., Longhi, C., McGlynn, G., Merkevicius, A., Merkyte, Inga, Metspalu, M., Mkrtchyan, R., Moiseyev, V., Paja, L., Palfi, G., Pokutta, D., Pospieszny, L., Price, T. D., Saag, L., Sablin, M., Shishlina, N., Smrcka, V., Soenov, V. I., Szeverenyi, V., Toth, G., Trifanova, S. V., Varul, L., Vicze, M., Yepiskoposyan, L., Zhitenev, V., Orlando, L. A. A., Sicheritz-Ponten, T., Brunak, Søren, Nielsen, Rasmus, Kristiansen, K. & Willerslev, Eske, 2015, In: Nature Genetics. 522, 7555, p. 167-172 6 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  9. 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, Surridge, A. K., Vieira, Filipe Garrett, McFadden, G., Nielsen, Rasmus, Gilbert, M Thomas P, Esteves, P. J., Ferrand, N. & Jiggins, F. M., 2019, In: Science. 363, 6433

    Research output: Contribution to journal › Journal article › Research › peer-review

  10. Published

    Targets of balancing selection in the human genome

    Andrés, A. M., Hubisz, M. J., Indap, A., Torgerson, D. G., Degenhardt, J. D., Boyko, A. R., Gutenkunst, R. N., White, T. J., Green, E. D., Bustamante, C. D., Clark, A. G. & Nielsen, Rasmus, 2009, In: Molecular Biology and Evolution. 26, 12, p. 2755-64 9 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  11. Balancing Selection Maintains a Form of ERAP2 that Undergoes Nonsense-Mediated Decay and Affects Antigen Presentation

    Andrés, A. M., Dennis, M. Y., Kretzschmar, W. W., Cannons, J. L., Lee-Lin, S., Hurle, B., Schwartzberg, P. L., Williamson, S. H., Bustamante, C. D., Nielsen, Rasmus, Clark, A. G. & Green, E. D., 2010, In: PLOS Genetics. 6, 10, 13 p., e1001157.

    Research output: Contribution to journal › Journal article › Research › peer-review

  12. Published

    The effect of ancient DNA damage on inferences of demographic histories

    Axelsson, E., Willerslev, Eske, Gilbert, M Thomas P & Nielsen, Rasmus, 2008, In: Molecular Biology and Evolution. 25, 10, p. 2181-7 6 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  13. 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

  14. Published

    Genetic risk for Multiple Sclerosis originated in Pastoralist Steppe populations

    Barrie, W., Yang, Y., Attfield, K. E., Irving-Pease, E., Scorrano, G., Jensen, L. T., Armen, A. P., Dimopoulos, E. A., Stern, A., Refoyo-Martínez, A., Ramsøe, A., Gaunitz, C., Demeter, F., Jørkov, M. L. S., Møller, S. B., Springborg, B., Klassen, L., Hyldgård, I. M., Wickmann, N., Vinner, L. & 9 others, Korneliussen, Thorfinn Sand, Sikora, Martin, Kristiansen, K., Rodriguez, S., Nielsen, Rasmus, Iversen, A. K. N., Lawson, D. J., Fugger, L. & Willerslev, Eske, 2022, bioRxiv, 55 p.

    Research output: Working paper › Preprint › Research

  15. Published

    Elevated genetic risk for multiple sclerosis emerged in steppe pastoralist populations

    Barrie, W., Yang, Y., Irving-Pease, E. K., Attfield, K. E., Scorrano, G., Jensen, L. T., Armen, A. P., Dimopoulos, E. A., Stern, A., Refoyo-Martinez, A., Pearson, A., Ramsøe, A., Gaunitz, C., Demeter, F., Jørkov, M. L. S., Møller, S. B., Springborg, B., Klassen, L., Hyldgård, I. M., Wickmann, N. & 11 others, Vinner, Lasse, Korneliussen, Thorfinn Sand, Allentoft, Morten Erik, Sikora, Martin, Kristiansen, Kristian, Rodriguez, S., Nielsen, Rasmus, Iversen, A. K. N., Lawson, D. J., Fugger, Lars & Willerslev, Eske, 2024, In: Nature. 625, 7994, p. 321-328

    Research output: Contribution to journal › Journal article › Research › peer-review

  16. In defence of model-based inference in phylogeography

    Beaumont, M. A., Nielsen, R., Robert, C., Hey, J., Gaggiotti, O., Knowles, L., Estoup, A., Panchal, M., Corander, J., Hickerson, M., Sisson, S. A., Fagundes, N., Chikhi, L., Beerli, P., Vitalis, R., Cornuet, J. M., Huelsenbeck, J., Foll, M., Yang, Z., Rousset, F. & 2 others, Balding, D. & Excoffier, L., 2010, In: Molecular Ecology. 19, 3, p. 436-446 11 p.

    Research output: Contribution to journal › Review › Research › peer-review

  17. Temporal genomic contrasts reveal rapid evolutionary responses in an alpine mammal during recent climate change

    Bi, K., Linderoth, T., Singhal, S., Vanderpool, D., Patton, J. L., Nielsen, Rasmus, Moritz, C. & Good, J. M., 2019, In: PLOS Genetics. 15, 5, 22 p., e1008119.

    Research output: Contribution to journal › Journal article › Research › peer-review

  18. Unlocking the vault: next-generation museum population genomics

    Bi, K., Linderoth, T., Vanderpool, D., Good, J. M., Nielsen, Rasmus & Moritz, C., 2013, In: Molecular Ecology. 22, 24, p. 6018-6032 15 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  19. Published

    The use of coded PCR primers enables high-throughput sequencing of multiple homolog amplification products by 454 parallel sequencing.

    Binladen, J., Gilbert, M Thomas P, Bollback, J. P., Panitz, F., Bendixen, C., Nielsen, Rasmus & Willerslev, Eske, 2007, In: PLoS ONE. 2, 2, p. e197

    Research output: Contribution to journal › Journal article › Research › peer-review

  20. Investigate the origins of COVID-19

    Bloom, J. D., Chan, Y. A., Baric, R. S., Bjorkman, P. J., Cobey, S., Deverman, B. E., Fisman, D. N., Gupta, R., Iwasaki, A., Lipsitch, M., Medzhitov, R., Neher, R. A., Nielsen, Rasmus, Patterson, N., Stearns, T., van Nimwegen, E., Worobey, M. & Relman, D. A., 2021, In: Science. 372, 6543, p. 694 1 p.

    Research output: Contribution to journal › Letter › Research › peer-review

  21. Published

    Estimation of 2N(e)s from temporal allele frequency data

    Bollback, J. P., York, T. L. & Nielsen, Rasmus, 2008, In: Genetics. 179, p. 497-502 6 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  22. Published

    Assessing the evolutionary impact of amino acid mutations in the human genome

    Boyko, A. R., Williamson, S. H., Indap, A. R., Degenhardt, J. D., Hernandez, R. D., Lohmueller, K. E., Adams, M. D., Schmidt, S., Sninsky, J. J., Sunyaev, S. R., White, T. J., Nielsen, Rasmus, Clark, A. G. & Bustamante, C. D., 2008, In: PLoS Genetics. 4, 5, p. e1000083

    Research output: Contribution to journal › Journal article › Research › peer-review

  23. Published

    The evolution of gene expression levels in mammalian organs

    Brawand, D., Soumillon, M., Necsulea, A., Julien, P., Csardi, G., Harrigan, P., Weier, M., Liechti, A., Aximu-Petri, A., Kircher, M., Albert, F. W., Zeller, U., Khaitovich, P., Gruetzner, F., Bergmann, S., Nielsen, Rasmus, Paeaebo, S. & Kaessmann, H., 20 Oct 2011, In: Nature. 478, 7369, p. 343-348 6 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  24. Published

    Intracellular calcium modulates basolateral K(+)-permeability in frog skin epithelium

    Larsen, Birger Brodin, Rytved, K. A. & Nielsen, Rasmus, 1994, In: Pflügers Archiv - European Journal of Physiology. 426, 1-2, p. 171-3 3 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  25. Published

    An increase in [Ca2+]i activates basolateral chloride channels and inhibits apical sodium channels in frog skin epithelium

    Larsen, Birger Brodin, Rytved, K. A. & Nielsen, Rasmus, 1996, In: Pflügers Archiv - European Journal of Physiology. 433, 1-2, p. 16-25 10 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  26. Published

    Selection in Europeans on fatty acid desaturases associated with dietary changes

    Buckley, M. T., Racimo, Fernando, Allentoft, Morten Erik, Jensen, M. K., Jonsson, Anna Elisabet, Huang, H., Hormozdiari, F., Sikora, Martin, Marnetto, D., Eskin, E., Jørgensen, M. E., Grarup, Niels, Pedersen, Oluf Borbye, Hansen, Torben, Kraft, P., Willerslev, Eske & Nielsen, Rasmus, Jun 2017, In: Molecular Biology and Evolution. 34, 6, p. 1307-1318 12 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  27. 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. 1153-1157

    Research output: Contribution to journal › Letter › Research

  28. Published

    Genome-wide patterns of nucleotide polymorphism in domesticated rice

    Caicedo, A. L., Williamson, S. H., Hernandez, R. D., Boyko, A., Fledel-Alon, A., York, T. L., Polato, N. R., Olsen, K. M., Nielsen, Rasmus, McCouch, S. R., Bustamante, C. D. & Purugganan, M. D., 2007, In: PLoS Genetics. 3, 9, p. 1745-56 11 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  29. 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

  30. Published

    Whole-genome sequence analysis unveils different origins of European and Asiatic mouflon and domestication-related genes in sheep

    Chen, Z., Xu, Y., Xie, X., Wang, D., Aguilar-Gómez, D., Liu, G., Li, X., Esmailizadeh, A., Rezaei, V., Kantanen, J., Ammosov, I., Nosrati, M., Periasamy, K., Coltman, D. W., Lenstra, J. A., Nielsen, Rasmus & Li, M., 2021, In: Communications Biology . 4, 15 p., 1307.

    Research output: Contribution to journal › Journal article › Research › peer-review

  31. Published

    Fast admixture analysis and population tree estimation for SNP and NGS data

    Cheng, J. Y., Mailund, T. & Nielsen, Rasmus, 15 Jul 2017, In: Bioinformatics. 33, 14, p. 2148-2155 8 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  32. Published

    Detecting Selection in Multiple Populations by Modeling Ancestral Admixture Components

    Cheng, J. Y., Stern, A. J., Racimo, Fernando & Nielsen, Rasmus, 2022, In: Molecular Biology and Evolution. 39, 1, 14 p., msab294.

    Research output: Contribution to journal › Journal article › Research › peer-review

  33. 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

  34. 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

  35. Published

    Evolution of genes and genomes on the Drosophila phylogeny. Drosophila 12 Genomes Consortium

    Clark, A. G., Eisen, M. B., Smith, D. R., Bergman, C. M., Oliver, B., Markow, T. A., Kaufman, T. C., Kellis, M., Gelbart, W., Iyer, V. N., Pollard, D. A., Sackton, T. B., Larracuente, A. M., Singh, N. D., Abad, J. P., Abt, D. N., Adryan, B., Aguade, M., Akashi, H., Anderson, W. W. & 31 others, Aquadro, C. F., Ardell, D. H., Arguello, R., Artieri, C. G., Barbash, D. A., Barker, D., Barsanti, P., Batterham, P., Batzoglou, S., Begun, D., Bhutkar, A., Blanco, E., Bosak, S. A., Bradley, R. K., Brand, A. D., Brent, M. R., Brooks, A. N., Brown, R. H., Butlin, R. K., Caggese, C., Calvi, B. R., Bernardo de Carvalho, A., Caspi, A., Castrezana, S., Celniker, S. E., Chang, J. L., Garcia, A. C. L., Nielsen, Rasmus, Pedersen, J. S., Vieira, Filipe Garrett & Drosophila 12 Genomes Consortium, D. 1. G. C., 2007, In: Nature. 450, 7167, p. 203-18 15 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  36. Published

    Ascertainment bias in studies of human genome-wide polymorphism

    Clark, A. G., Hubisz, M. J., Bustamente, C. D., Williamson, S. H. & Nielsen, Rasmus, 2005, In: Genome Research. 15, 11, p. 1496-1502

    Research output: Contribution to journal › Journal article › Research › peer-review

  37. Published

    A hidden Markov model approach for simultaneously estimating local ancestry and admixture time using next generation sequence data in samples of arbitrary ploidy

    Corbett-Detig, R. & Nielsen, Rasmus, 3 Jan 2017, In: PLoS Genetics. 13, 1, 40 p., e1006529.

    Research output: Contribution to journal › Journal article › Research › peer-review

  38. 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

  39. The Genetic Basis of Adaptation following Plastic Changes in Coloration in a Novel Environment

    Corl, A., Bi, K., Luke, C., Challa, A. S., Stern, A. J., Sinervo, B. & Nielsen, Rasmus, 2018, In: Current Biology. 28, 18, p. 2970-2977, e1-e7

    Research output: Contribution to journal › Journal article › Research › peer-review

  40. 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

  41. Detecting adaptive trait loci in nonmodel systems: divergence or admixture mapping?

    Crawford, J. E. & Nielsen, Rasmus, 2013, In: Molecular Ecology. 22, 24, p. 6131-6148 18 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  42. Evolution of GOUNDRY, a cryptic subgroup of Anopheles gambiae s.l., and its impact on susceptibility to Plasmodium infection

    Crawford, J. E., Riehle, M. M., Markianos, K., Bischoff, E., Guelbeogo, W. M., Gneme, A., Sagnon, N., Vernick, K. D., Nielsen, Rasmus & Lazzaro, B. P., 2016, In: Molecular Ecology. 25, 7, p. 1494-1510 17 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  43. 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

  44. Published

    137 ancient human genomes from across the Eurasian steppes

    Damgaard, P. D. B., Marchi, N., Rasmussen, S., Peyrot, M., Renaud, G., Korneliussen, T. S., Moreno-Mayar, J. V., Pedersen, M. W., Goldberg, A., Usmanova, E., Baimukhanov, N., Loman, V., Hedeager, L., Pedersen, A. G., Nielsen, K., Afanasievl, G., Akmatov, K., Aldashev, A., Alpaslan, A., Baimbetov, G. & 55 others, Bazaliiskii, V. I., Beisenov, A., Boldbaatar, B., Boldgiv, B., Dorzhu, C., Ellingvag, S., Erdenebaatar, D., Dajani, R., Dmitriev, E., Evdokimov, V., Frei, K. M., Gromov, A., Goryachev, A., Hakonarson, H., Hegay, T., Khachatryan, Z., Khaskhanov, R., Kitov', E., Kolbina, A., Kubatbek, T., Kukushkin, A., Kukushkin, I., Lau, N., Margaryan, Ashot, Merkyte, Inga, Mertz, I. V., Mertz, V. K., Mijiddorj, E., Moiyesev, V., Mukhtarova, G., Nurmukhanbetov, B., Orozbekova, Z., Panyushkina, I., Pieta, K., Smrčka, V., Shevnina, I., Logvin, A., Sjögren, K., Štolcová, T., Tashbaeva, K., Tkachev, A., Tulegenov, T., Voyakin, D., Yepiskoposyan, L., Undrakhbold, S., Varfolomeev, V., Weber, A., Kradin, N., Allentoft, Morten Erik, Orlando, L. A. A., Nielsen, Rasmus, Sikora, Martin, Heyer, E., Kristiansen, K. & Willerslev, Eske, 2018, In: Nature. 557, 7705, p. 369-374 6 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  45. The distribution of waiting distances in ancestral recombination graphs

    Deng, Y., Song, Y. S. & Nielsen, Rasmus, 2021, In: Theoretical Population Biology. 141, p. 34-43 10 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

  46. Published

    Detecting coevolving amino acid sites using Bayesian mutational mapping

    Dimmic, M. W., Hubisz, M. J., Bustamente, C. D. & Nielsen, Rasmus, 2005, In: Bioinformatics. 21, 1, p. i126-i135

    Research output: Contribution to journal › Journal article › Research › peer-review

  47. 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, Petersen, S., Rabbani, L., Regalado, J., Reinelt, L., Rowan, B., Seymour, D. K., Symeonidi, E., Schwab, R., Diep Thi Ngoc Tran, Venkataramani, K., Van de Weyer, A., Vasseur, F., Wang, G., Wedegartner, R., Weiss, F., Wu, R., Xi, W., Zaidem, M., Zhu, W., Garcia-Arenal, F., Burbano, H. A., Bossdorf, O. & Weigel, D., 2019, In: Nature. 573, 7772, p. 126-129

    Research output: Contribution to journal › Letter › Research › peer-review

  48. 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

  49. Genome-wide signatures of complex introgression and adaptive evolution in the big cats

    Figueiró, H. V., Li, G., Trindade, F. J., Assis, J., Pais, F., Fernandes, G., Santos, S. H. D., Hughes, G. M., Komissarov, A., Antunes, A., Trinca, C. S., Rodrigues, M. R., Linderoth, T., Bi, K., Silveira, L., Azevedo, F. C. C., Kantek, D., Ramalho, E., Brassaloti, R. A., Villela, P. M. S. & 13 others, Nunes, A. L. V., Teixeira, R. H. F., Morato, R. G., Loska, D., Saragüeta, P., Gabaldón, T., Teeling, E. C., O'Brien, S. J., Nielsen, Rasmus, Coutinho, L. L., Oliveira, G., Murphy, W. J. & Eizirik, E., 1 Jan 2017, In: Science Advances. 3, 7, 13 p., e1700299.

    Research output: Contribution to journal › Journal article › Research › peer-review

  50. Published

    ngsTools : methods for population genetics analyses from next-generation sequencing data

    Fumagalli, M., Vieira, Filipe Garrett, Linderoth, T. & Nielsen, Rasmus, 2014, In: Bioinformatics. 30, 10, p. 1486-1487 2 p.

    Research output: Contribution to journal › Journal article › Research › peer-review

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