Rasmus Nielsen

Research output

Research output per year 1994 2005 2007 2008 2009 2010 2011 2013 2014 2015 2016 2017 2018 2019 2020 2021 2022 2024 2024

• 49361 Citations
• 231 Journal article
• 12 Review
• 10 Letter
• 2 Book chapter
• 8 More
  • 2 Comment/debate
  • 2 Preprint
  • 1 Book
  • 1 Article in proceedings
  • 1 Conference article
  • 1 Editorial

Research output per year

Research output per year

Search results

• 2024

  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, E. K., Barrie, W., Pearson, A., Sousa da Mota, B., Demeter, F., Henriksen, R. A., Vimala, T., McColl, H., Vaughn, A., Vinner, L., Renaud, G., Stern, A., Johannsen, N. N., Ramsøe, A. D., Schork, A. J., Ruter, A., Gotfredsen, A. B., Nielsen, B. H., Petersen, E. B., Kannegaard, E., Hansen, J., Pedersen, K. B., Pedersen, L., Klassen, L., Meldgaard, M., Johansen, M., Uldum, O. C., Lotz, P., Lysdahl, P., Bangsgaard, P., Petersen, P. V., Maring, R., Iversen, R., Wåhlin, S., Sørensen, S. A., Andersen, S. H., Jørgensen, T., Lynnerup, N., Lawson, D. J., Rasmussen, S., Korneliussen, T. S., Kjær, K. H., Durbin, R., Nielsen, R., Delaneau, O., Werge, T., Kristiansen, K. & Willerslev, E., 2024, In: Nature. 625, 7994, p. 329-337 9 p.

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

  Open Access

  File
  14 Citations (Scopus)

  88 Downloads (Pure)

• A rapid phylogeny-based method for accurate community profiling of large-scale metabarcoding datasets

  Pipes, L. & Nielsen, R., 2024, In: eLife. 13, 20 p., e85794.

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

  Open Access

  File
  1 Downloads (Pure)

• Deep Ancestral Introgressions between Ovine Species Shape Sheep Genomes via Argali-Mediated Gene Flow

  Lv, F-H., Wang, D-F., Zhao, S-Y., Lv, X-Y., Sun, W., Nielsen, R. & Li, M-H., 2024, In: Molecular Biology and Evolution. 41, 11, 13 p., msae212.

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

  Open Access

  File
  2 Downloads (Pure)

• 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, L., Korneliussen, T. S., Allentoft, M. E., Sikora, M., Kristiansen, K., Rodriguez, S., Nielsen, R., Iversen, A. K. N., Lawson, D. J., Fugger, L. & Willerslev, E., 2024, In: Nature. 625, 7994, p. 321-328

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

  Open Access

  File
  27 Citations (Scopus)

  44 Downloads (Pure)

• Fast and Accurate Estimation of Selection Coefficients and Allele Histories from Ancient and Modern DNA

  Vaughn, A. H. & Nielsen, R., 2024, In: Molecular Biology and Evolution. 41, 8, 20 p., msae156.

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

  Open Access

  File
  2 Citations (Scopus)

• Functional annotation of variants of the BRCA2 gene via locally haploid human pluripotent stem cells

  Li, H., Bartke, R., Zhao, L., Verma, Y., Horacek, A., Rechav Ben-Natan, A., Pangilinan, G. R., Krishnappa, N., Nielsen, R. & Hockemeyer, D., 2024, In: Nature Biomedical Engineering. 8, 2, p. 165-176

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

  Open Access

  File
  4 Citations (Scopus)

  5 Downloads (Pure)

• Inference and applications of ancestral recombination graphs

  Nielsen, R., Vaughn, A. H. & Deng, Y., 2024, (E-pub ahead of print) In: Nature Reviews Genetics. 12 p.

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

• 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, H., Margaryan, A., Ilardo, M., Vaughn, A., Mortensen, M. F., Nielsen, A. B., Hede, M. U., Johannsen, N. N., Rasmussen, P., Vinner, L., Renaud, G., Stern, A., Jensen, T. Z. T., Scorrano, G., Schroeder, H., Lysdahl, P., Ramsøe, A. D., Skorobogatov, A., Schork, A. J., Rosengren, A., Ruter, A., Outram, A., Timoshenko, A. A., Buzhilova, A., Coppa, A., Zubova, A., Silva, A. M., Hansen, A. J., Gromov, A., Logvin, A., Gotfredsen, A. B., Nielsen, B. H., González-Rabanal, B., Lalueza-Fox, C., McKenzie, C. J., Gaunitz, C., 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, E., Petersen, E. B., Kannegaard, E., Radina, F., Yediay, F. E., Duday, H., Gutiérrez-Zugasti, I., Merts, I., Potekhina, I., Shevnina, I., Altinkaya, I., Guilaine, J., Hansen, J., Tortosa, J. E. A., Zilhão, J., Vega, J., Pedersen, K. B., Tunia, K., Zhao, L., 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, M., 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, P., de Barros Damgaard, P., Vang Petersen, P., Martinez, P. P., Włodarczak, P., Smolyaninov, R. V., Maring, R., Menduiña, R., Badalyan, R., Iversen, R., 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, K. H., Lynnerup, N., Lawson, D. J., Sudmant, P. H., Rasmussen, S., Korneliussen, T. S., Durbin, R., Nielsen, R., Delaneau, O., Werge, T., Racimo, F., Kristiansen, K. & Willerslev, E., 2024, In: Nature. 625, 7994, p. 301-311

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

  Open Access

  File
  27 Citations (Scopus)

  63 Downloads (Pure)

• Revisiting the Briggs Ancient DNA Damage Model: A Fast Maximum Likelihood Method to Estimate Post-Mortem Damage

  Zhao, L., Henriksen, RA., Ramsøe, A., Nielsen, R. & Korneliussen, TS., 2024, (E-pub ahead of print) In: Molecular Ecology Resources. 12 p.

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

  Open Access

• The evolutionary dynamics of local adaptations under genetic rescue is determined by mutational load and polygenicity

  Zhang, Y., Stern, A. J. & Nielsen, R., 2024, In: Journal of Heredity. 115, 4, p. 373-384 12 p.

  Research output: Contribution to journal › Journal article › Research › peer-review
  1 Citation (Scopus)

• The selection landscape and genetic legacy of ancient Eurasians

  Irving-Pease, E. K., Refoyo-Martínez, A., Barrie, W., Ingason, A., Pearson, A., Fischer, A., Sjögren, K. G., Halgren, A. S., Macleod, R., Demeter, F., Henriksen, R. A., Vimala, T., McColl, H., Vaughn, A. H., Speidel, L., Stern, A. J., Scorrano, G., Ramsøe, A., Schork, A. J., Rosengren, A. & 14 others, Zhao, L., Kristiansen, K., Iversen, A. K. N., Fugger, L., Sudmant, P. H., Lawson, D. J., Durbin, R., Korneliussen, T., Werge, T., Allentoft, M. E., Sikora, M., Nielsen, R., Racimo, F. & Willerslev, E., 2024, In: Nature. 625, 7994, p. 312-320 9 p.

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

  Open Access

  File
  18 Citations (Scopus)

• Understanding admixture fractions: theory and estimation of gene-flow

  Liang, M., Shishkin, M., Shchur, V. & Nielsen, R., 2024, In: Journal of Mathematical Biology. 89, 5, 23 p., 47.

  Research output: Contribution to journal › Journal article › Research › peer-review
• 2023

  Bayesian inference of admixture graphs on Native American and Arctic populations

  Nielsen, S. V., Vaughn, A. H., Leppälä, K., Landis, M. J., Mailund, T. & Nielsen, R., 2023, In: PLOS Genetics. 19, 2, 22 p., e1010410.

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

  Open Access

  File
  10 Citations (Scopus)

  16 Downloads (Pure)

• 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, R. & Godinho, R., 2023, In: Nature Ecology and Evolution. 7, 8, p. 1267-1286

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

  Open Access

  File
  10 Citations (Scopus)

  1 Downloads (Pure)
• 2022

  AncestralClust: clustering of divergent nucleotide sequences by ancestral sequence reconstruction using phylogenetic trees

  Pipes, L. & Nielsen, R., 2022, In: Bioinformatics. 38, 3, p. 663-670 8 p.

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

  Open Access
  4 Citations (Scopus)

• Covariance of pairwise differences on a multi-species coalescent tree and implications for F_ST

  Guerra, G. & Nielsen, R., 2022, In: Philosophical Transactions of the Royal Society B: Biological Sciences. 377, 1852, 14 p., 20200415.

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

  Open Access

  File
  1 Citation (Scopus)

  20 Downloads (Pure)

• Detecting Selection in Multiple Populations by Modeling Ancestral Admixture Components

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

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

  Open Access

  File
  20 Citations (Scopus)

  30 Downloads (Pure)

• DistAngsd: Fast and Accurate Inference of Genetic Distances for Next-Generation Sequencing Data

  Zhao, L., Nielsen, R. & Korneliussen, T. S., 2022, In: Molecular Biology and Evolution. 39, 6, 14 p., msac119.

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

  Open Access

  File
  1 Citation (Scopus)

  30 Downloads (Pure)

• Estimating the relative proportions of SARS-CoV-2 haplotypes from wastewater samples

  Pipes, L., Chen, Z., Afanaseva, S. & Nielsen, R., 2022, In: Cell Reports Methods. 2, 10, 100313.

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

  Open Access

  File
  3 Citations (Scopus)

  9 Downloads (Pure)

• Estimating the timing of multiple admixture events using 3-locus linkage disequilibrium

  Liang, M., Shishkin, M., Mikhailova, A., Shchur, V. & Nielsen, R., 2022, In: PLOS Genetics. 18, 7, 17 p., e1010281.

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

  Open Access

  File
  4 Citations (Scopus)

  18 Downloads (Pure)

• Evaluation of methods for estimating coalescence times using ancestral recombination graphs

  Y C Brandt, D., Wei, X., Deng, Y., Vaughn, A. H. & Nielsen, R., 2022, In: Genetics. 221, 1, 13 p., iyac044.

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

  Open Access
  16 Citations (Scopus)

• 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, T. S., Sikora, M., Kristiansen, K., Rodriguez, S., Nielsen, R., Iversen, A. K. N., Lawson, D. J., Fugger, L. & Willerslev, E., 2022, bioRxiv, 55 p.

  Research output: Working paper › Preprint › Research

  File
  57 Downloads (Pure)

• Modern population genetics and race

  Nielsen, R., 2022, Remapping Race in a Global Context. Lorusso, L. & Winther, R. G. (eds.). Routledge, p. 157-163 7 p. (History and Philosophy of Biology).

  Research output: Chapter in Book/Report/Conference proceeding › Book chapter › 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, R., 2022, In: Genome Biology and Evolution. 14, 7, 14 p., evac076.

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

  Open Access

  File
  4 Citations (Scopus)

  3 Downloads (Pure)

• Predicting Egg Passage Adaptations to Design Better Vaccines for the H3N2 Influenza Virus

  Liu, Y., Chen, H., Duan, W., Zhang, X., He, X., Nielsen, R., Ma, L. & Zhai, W., 2022, In: Viruses. 14, 9, 16 p., 2065.

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

  Open Access

  File
  1 Citation (Scopus)

  10 Downloads (Pure)

• SCONCE: a method for profiling copy number alterations in cancer evolution using single-cell whole genome sequencing

  Hui, S. & Nielsen, R., 2022, In: Bioinformatics. 38, 7, p. 1801-1808 8 p.

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

  Open Access

  File
  12 Citations (Scopus)

  3 Downloads (Pure)

• The genetic architecture of phenotypic diversity in the Betta fish (Betta splendens)

  Zhang, W., Wang, H., Brandt, D. Y. C., Hu, B., Sheng, J., Wang, M., Luo, H., Li, Y., Guo, S., Sheng, B., Zeng, Q., Peng, K., Zhao, D., Jian, S., Wu, D., Wang, J., Zhao, G., Ren, J., Shi, W., van Esch, J. H. M. & 3 others, Klingunga, S., Nielsen, R. & Hong, Y., 2022, In: Science Advances. 8, 38, 13 p., eabm4955.

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

  Open Access

  File
  15 Citations (Scopus)

  12 Downloads (Pure)

• The population genomic legacy of the second plague pandemic

  Gopalakrishnan, S., Ebenesersdóttir, S. S., Lundstrøm, I. K. C., Turner-Walker, G., Moore, K. H. S., Luisi, P., Margaryan, A., Martin, M. D., Ellegaard, M. R., Magnússon, Ó., Sigurðsson, Á., Snorradóttir, S., Magnúsdóttir, D. N., Laffoon, J. E., van Dorp, L., Liu, X., Moltke, I., Ávila-Arcos, M. C., Schraiber, J. G., Rasmussen, S. & 40 others, Juan, D., Gelabert, P., de-Dios, T., Fotakis, A. K., Iraeta-Orbegozo, M., Vågene, Å. J., Denham, S. D., Christophersen, A., Stenøien, H. K., Vieira, F. G., Liu, S., Günther, T., Kivisild, T., Moseng, O. G., Skar, B., Cheung, C., Sandoval-Velasco, M., Wales, N., Schroeder, H., Campos, P. F., Guðmundsdóttir, V. B., Sicheritz-Ponten, T., Petersen, B., Halgunset, J., Gilbert, E., Cavalleri, G. L., Hovig, E., Kockum, I., Olsson, T., Alfredsson, L., Hansen, T. F., Werge, T., Willerslev, E., Balloux, F., Marques-Bonet, T., Lalueza-Fox, C., Nielsen, R., Stefánsson, K., Helgason, A. & Gilbert, M. T. P., 2022, In: Current Biology. 32, 21, p. 4743-4751.e6

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

  Open Access

  File
  11 Citations (Scopus)

  27 Downloads (Pure)

• The Selection Landscape and Genetic Legacy of Ancient Eurasians

  Irving-Pease, E., Refoyo Martínez, A., Ingason, A., Pearson, A., Fischer, A., Barrie, W., Sjögren, K-G., Halgren, A. S., Macleod, R., Demeter, F., Henriksen, R. H. A., Vimala, T., McColl, H., Vaughn, A., Stern, A. J., Speidel, L., Scorrano, G., Ramsøe, A., Schork, A. J., Rosengren, A. & 12 others, Zhao, L., Kristiansen, K., Sudmant, P. H., Lawson, D. J., Durbin, R., Korneliussen, T., Werge, T., Allentoft, M. E., Sikora, M., Nielsen, R., Racimo, F. & Willerslev, E., 2022, bioRxiv, 26 p.

  Research output: Working paper › Preprint › Research

  File
  56 Downloads (Pure)

• The Tibetan-Yi region is both a corridor and a barrier for human gene flow

  Zhang, Z., Zhang, Y., Wang, Y., Zhao, Z., Yang, M., Zhang, L., Zhou, B., Xu, B., Zhang, H., Chen, T., Dai, W., Zhou, Y., Shi, S., Nielsen, R., Li, S. C. & Li, S., 2022, In: Cell Reports. 39, 4, 16 p., 110720.

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

  Open Access

  File
  8 Citations (Scopus)

  16 Downloads (Pure)
• 2021

  Assessing Uncertainty in the Rooting of the SARS-CoV-2 Phylogeny

  Pipes, L., Wang, H., Huelsenbeck, J. P. & Nielsen, R., 2021, In: Molecular Biology and Evolution. 38, 4, p. 1537-1543 7 p.

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

  Open Access

  File
  25 Citations (Scopus)

  18 Downloads (Pure)

• Convergent evolution of increased urine-concentrating ability in desert mammals

  Rocha, J. L., Brito, J. C., Nielsen, R. & Godinho, R., 2021, In: Mammal Review. 51, 4, p. 482-491 10 p.

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

  Open Access

  File
  7 Citations (Scopus)

  23 Downloads (Pure)

• Disentangling selection on genetically correlated polygenic traits via whole-genome genealogies

  Stern, A. J., Speidel, L., Zaitlen, N. A. & Nielsen, R., 2021, In: American Journal of Human Genetics. 108, 2, p. 219-239 21 p.

  Research output: Contribution to journal › Journal article › Research › peer-review
  36 Citations (Scopus)

• 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, R. & 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

  Open Access

  File
  12 Citations (Scopus)

  3 Downloads (Pure)

• Inferring Adaptive Introgression Using Hidden Markov Models

  Svedberg, J., Shchur, V., Reinman, S., Nielsen, R. & Corbett-Detig, R., 2021, In: Molecular Biology and Evolution. 38, 5, p. 2152-2165 14 p.

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

  Open Access

  File
  15 Citations (Scopus)

  16 Downloads (Pure)

• 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, R., 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
  98 Citations (Scopus)

• Life in Deserts: The Genetic Basis of Mammalian Desert Adaptation

  Rocha, J. L., Godinho, R., Brito, J. C. & Nielsen, R., 2021, In: Trends in Ecology & Evolution. 36, 7, p. 637-650

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

  Open Access

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  38 Citations (Scopus)

  28 Downloads (Pure)

• Synonymous mutations and the molecular evolution of SARS-CoV-2 origins

  Wang, H., Pipes, L. & Nielsen, R., 2021, In: Virus Evolution. 7, 1, 11 p., veaa098.

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

  Open Access

  File
  34 Citations (Scopus)

  35 Downloads (Pure)

• The CALeDNA program: Citizen scientists and researchers inventory California's biodiversity

  Meyer, R. S., Ramos, M. M., Lin, M., Schweizer, T. M., Gold, Z., Ramos, D. R., Shirazi, S., Kandlikar, G., Kwan, W. Y., Curd, E. E., Freise, A., Parker, J. M., Sexton, J. P., Wetzer, R., Pentcheff, N. D., Wall, A. R., Pipes, L., Garcia- Vedrenne, A., Mejia, M. P., Moore, T. & 12 others, Orland, C., Ballare, K. M., Worth, A., Beraut, E., Aronson, E. L., Nielsen, R., Lewin, H. A., Barber, P. H., Wall, J., Kraft, N., Shapiro, B. & Wayne, R. K., 2021, In: California Agriculture. 75, 1, p. 20-32 13 p.

  Research output: Contribution to journal › Journal article › Research › peer-review
  19 Citations (Scopus)

• The distribution of waiting distances in ancestral recombination graphs

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

  Research output: Contribution to journal › Journal article › Research › peer-review
  8 Citations (Scopus)

• The genomics of mimicry: Gene expression throughout development provides insights into convergent and divergent phenotypes in a Müllerian mimicry system

  Stuckert, A. M. M., Chouteau, M., McClure, M., LaPolice, T. M., Linderoth, T., Nielsen, R., Summers, K. & MacManes, M. D., 2021, In: Molecular Ecology. 30, 16, p. 4039-4061 23 p.

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

  Open Access

  File
  24 Citations (Scopus)

  2 Downloads (Pure)

• The history and evolution of the Denisovan-EPAS1 haplotype in Tibetans

  Zhang, X., Witt, K. E., Banuelos, M. M., Ko, A., Yuan, K., Xu, S., Nielsen, R. & Huerta-Sanchez, E., 2021, In: Proceedings of the National Academy of Sciences of the United States of America. 118, 22, 9 p., 2020803118.

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

  Open Access
  53 Citations (Scopus)

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

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

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

  Open Access

  File
  46 Citations (Scopus)

  14 Downloads (Pure)
• 2020

  A Bayesian Framework for Inferring the Influence of Sequence Context on Point Mutations

  Ling, G., Miller, D., Nielsen, R. & Stern, A., 2020, In: Molecular Biology and Evolution. 37, 3, p. 893-903 11 p.

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

  Open Access

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• A draft genome sequence of the elusive giant squid, Architeuthis dux

  da Fonseca, R. R., Couto, A., Machado, A. M., Brejova, B., Albertin, C. B., Silva, F., Gardner, P., Baril, T., Hayward, A., Campos, A., Ribeiro, Â. M., Barrio-Hernandez, I., Hoving, H-J., Tafur-Jimenez, R., Chu, C., Frazão, B., Petersen, B., Peñaloza, F., Musacchia, F., Alexander, G. C. & 24 others, Osório, H., Winkelmann, I., Simakov, O., Rasmussen, S., Rahman, M. Z., Pisani, D., Vinther, J., Jarvis, E., Zhang, G., Strugnell, J. M., Castro, L. F. C., Fedrigo, O., Patricio, M., Li, Q., Rocha, S., Antunes, A., Wu, Y., Ma, B., Sanges, R., Vinar, T., Blagoev, B., Sicheritz-Pontén, T., Nielsen, R. & Gilbert, M. T. P., 2020, In: GigaScience. 9, 1, 12 p., giz152.

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• A likelihood method for estimating present-day human contamination in ancient male samples using low-depth X-chromosome data

  Moreno-Mayar, J. V., Korneliussen, T. S., Dalal, J., Renaud, G., Albrechtsen, A., Nielsen, R. & Malaspinas, A-S., 2020, In: Bioinformatics. 36, 3, p. 828-841 14 p.

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• Ancient Hybridization with an Unknown Population Facilitated High-Altitude Adaptation of Canids

  Wang, M., Wang, S., Li, Y., Jhala, Y., Thakur, M., Otecko, N. O., Si, J., Chen, H., Shapiro, B., Nielsen, R., Zhang, Y., Wu, D. & Parsch, J. (ed.), 2020, In: MOLECULAR BIOLOGY AND EVOLUTION . 37, 9, p. 2616-2629

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• Divergence, gene flow, and the origin of leapfrog geographic distributions: The history of colour pattern variation in Phyllobates poison-dart frogs

  Márquez, R., Linderoth, T. P., Mejia-Vargas, D., Nielsen, R., Amezquita, A. & Kronforst, M. R., 2020, In: Molecular Ecology. 29, 19, p. 3702-3719 18 p.

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• Inferring the ancestry of parents and grandparents from genetic data

  Pei, J., Zhang, Y., Nielsen, R. & Wu, Y., 2020, In: PLOS Computational Biology. 16, 8, 22 p., 1008065.

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• Massive haplotypes underlie ecotypic differentiation in sunflowers

  Todesco, M., Owens, G. L., Bercovich, N., Légaré, J. S., Soudi, S., Burge, D. O., Huang, K., Ostevik, K. L., Drummond, E. B. M., Imerovski, I., Lande, K., Pascual-Robles, M. A., Nanavati, M., Jahani, M., Cheung, W., Staton, S. E., Muños, S., Nielsen, R., Donovan, L. A., Burke, J. M. & 2 others, Yeaman, S. & Rieseberg, L. H., 2020, In: Nature. 584, 7822, p. 602-607 6 p.

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  237 Citations (Scopus)