Simon Rasmussen

Simon Rasmussen

Associate professor, group leader, Associate Professor

Member of:

    ORCID: 0000-0001-6323-9041

    Publication year:
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    11 - 20 out of 103Page size: 10
    1. 2023
    2. Published

      Mapache: a flexible pipeline to map ancient DNA

      Neuenschwander, S., Cruz Dávalos, D. I., Anchieri, L., Sousa da Mota, B., Bozzi, D., Rubinacci, S., Delaneau, O., Rasmussen, Simon & Malaspinas, A., 2023, In: Bioinformatics (Online). 39, 2, 3 p.

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

    3. 2022
    4. Published

      Critical Assessment of Metagenome Interpretation: the second round of challenges

      Meyer, F., Fritz, A., Deng, Z. L., Koslicki, D., Lesker, T. R., Gurevich, A., Robertson, G., Alser, M., Antipov, D., Beghini, F., Bertrand, D., Brito, J. J., Brown, C. T., Buchmann, J., Buluç, A., Chen, B., Chikhi, R., Clausen, P. T. L. C., Cristian, A., Dabrowski, P. W., Darling, A. E., Egan, R., Eskin, E., Georganas, E., Goltsman, E., Gray, M. A., Hansen, Lars Hestbjerg, Hofmeyr, S., Huang, P., Irber, L., Jia, H., Jørgensen, T. S., Kieser, S. D., Klemetsen, T., Kola, A., Kolmogorov, M., Korobeynikov, A., Kwan, J., LaPierre, N., Lemaitre, C., Li, C., Limasset, A., Malcher-Miranda, F., Mangul, S., Marcelino, V. R., Marchet, C., Marijon, P., Meleshko, D., Mende, D. R., Milanese, A., Nagarajan, N., Nissen, Jakob Nybo, Nurk, S., Oliker, L., Paoli, L., Peterlongo, P., Piro, V. C., Porter, J. S., Rasmussen, Simon, Rees, E. R., Reinert, K., Renard, B., Robertsen, E. M., Rosen, G. L., Ruscheweyh, H. J., Sarwal, V., Segata, N., Seiler, E., Shi, L., Sun, F., Sunagawa, S., Sørensen, Søren Johannes, Thomas, A., Tong, C., Trajkovski, M., Tremblay, J., Uritskiy, G., Vicedomini, R., Wang, Z., Wang, Z., Wang, Z., Warren, A., Willassen, N. P., Yelick, K., You, R., Zeller, G., Zhao, Z., Zhu, S., Zhu, J., Garrido-Oter, R., Gastmeier, P., Hacquard, S., Häußler, S., Khaledi, A., Maechler, F., Mesny, F., Radutoiu, S., Schulze-Lefert, P., Smit, N., Strowig, T., Bremges, A., Sczyrba, A. & McHardy, A. C., 2022, In: Nature Methods. 19, 4, p. 429-440

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

    5. Published

      Cross-generational bacterial strain transfer to an infant after fecal microbiota transplantation to a pregnant patient: a case report

      Wei, S., Jespersen, Marie Louise, Baunwall, S. M. D., Myers, P. N., Smith, E. M., Dahlerup, J. F., Rasmussen, Simon, Nielsen, H. B., Licht, T. R., Bahl, M. I. & Hvas, C. L., 2022, In: Microbiome. 10, 1, 14 p., 193.

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

    6. Published

      Deep learning-based integration of genetics with registry data for stratification of schizophrenia and depression

      Allesøe, R. L., Nudel, R., Thompson, W. K., Wang, Y., Nordentoft, Merete, Børglum, A. D., Hougaard, D. M., Werge, Thomas, Rasmussen, Simon & Benros, Michael Eriksen, 2022, In: Science Advances. 8, 26, eabi7293.

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

    7. Published

      Genome binning of viral entities from bulk metagenomics data

      Johansen, Joachim, Plichta, D. R., Nissen, J. N., Jespersen, Marie Louise, Shah, S. A., Deng, Ling, Stokholm, Jakob, Bisgaard, H., Nielsen, Dennis Sandris, Sørensen, Søren Johannes & Rasmussen, Simon, 2022, In: Nature Communications. 13, 12 p., 965.

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

    8. Published

      Machine learning and deep learning applications in microbiome research

      Hernandez Medina, Ricardo, Kutuzova, Svetlana, Nielsen, Knud Nor, Johansen, Joachim, Hansen, Lars Hestbjerg, Nielsen, Mads & Rasmussen, Simon, 2022, In: ISME Communications. 2, 7 p., 98.

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

    9. Published

      Noninvasive proteomic biomarkers for alcohol-related liver disease

      Niu, Lili, Thiele, M., Geyer, P. E., Rasmussen, D. N., Webel, Henry, Santos, A., Gupta, R., Meier, F., Strauss, Maximilian, Kjaergaard, M., Lindvig, K., Jacobsen, S., Rasmussen, Simon, Hansen, Torben, Krag, A. & Mann, Matthias, 2022, In: Nature Medicine. 28, 6, p. 1277-1287 11 p.

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

    10. Published

      Population Genomics of Stone Age Eurasia

      Allentoft, Morten Erik, Sikora, Martin, Refoyo Martínez, Alba, Irving-Pease, Evan, Fischer, A., Barrie, W., Ingason, A., Stenderup, J., Sjögren, K., Pearson, A., Mota, B., Paulsson, B. S., Halgren, A., Macleod, R., Jørkov, M L S, Demeter, Fabrice, Novosolov, Maria, Sørensen, L., Nielsen, P., Henriksen, Rasmus Henrik Amund, Vimala, Tharsika, McColl, Hugh, Margaryan, Ashot, Ilardo, M., Vaughn, A., Mortensen, M. F., Nielsen, A. B., Hede, M. U., Rasmussen, P., Vinner, Lasse, Renaud, Gabriel, Stern, A., Jensen, Theis Zetner Trolle, Johannsen, N. N., Scorrano, Gabriele, Schroeder, Hannes, Lysdahl, P., Ramsøe, Abigail Daisy, Skorobogatov, A., Schork, Andrew Joseph, 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., 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., Yeppiskoposyan, 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., Uldum, O. C., Aurino, P., Kosintsev, P., Courtaud, P., Ríos, P., Mortensen, P., Lotz, P., Persson, P. Å., Bangsgaard, P., Damgaard, P. D. B., Petersen, P. V., Martinez, P. P., Włodarczak, P., Smolyaninov, R. V., Maring, R., Menduiña, R., Badalyan, R., Iversen, Rune, Turin, R., Vasilyiev, S., Wåhlin, S., Borutskaya, S., Skochina, S., Sørensen, S. A., Andersen, S. H., Jørgensen, T., Serikov, Y. B., Molodin, V. I., Smrcka, V., Merz, 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, R., Delaneau, O., Werge, Thomas, Racimo, Fernando, Kristiansen, K. & Willerslev, Eske, 2022, p. 1-71, (bioRxiv).

      Research output: Working paper › Preprint

    11. Published

      SCAI promotes error-free repair of DNA interstrand crosslinks via the Fanconi anemia pathway

      Schubert, Lisa, Hendriks, Ivo Alexander, Hertz, Emil Peter Thrane, Wu, Wei, Sellés Baiget, Selene, Hoffmann, Saskia, Bagge, Keerthana Stine Viswalingam, Gallina, I., Pentakota, S., Benedict, Bente, Johansen, Joachim, Apelt, K., Luijsterburg, M. S., Rasmussen, Simon, Lisby, Michael, Liu, Ying, Nielsen, Michael Lund, Mailand, Niels & Duxin, Julien, 2022, In: EMBO Reports. 23, 4, 20 p., e53639.

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

    12. Published

      The population genomic legacy of the second plague pandemic

      Gopalakrishnan, Shyam, Ebenesersdóttir, S. S., Lundstrøm, I. K. C., Turner-Walker, G., Moore, K. H. S., Luisi, P., Margaryan, Ashot, Martin, M. D., Ellegaard, M. R., Magnússon, Ó., Sigurðsson, Á., Snorradóttir, S., Magnúsdóttir, D. N., Laffoon, J. E., van Dorp, L., Liu, Xiaodong, Moltke, Ida, Ávila-Arcos, M. C., Schraiber, J. G., Rasmussen, Simon, Juan, D., Gelabert, P., de-Dios, T., Fotaki, Anna Katerina, Iraeta Orbegozo, Miren, Vågene, Åshild Joanne, Denham, S. D., Christophersen, A., Stenøien, H. K., Vieira, F. G., Liu, Shanlin, Günther, T., Kivisild, T., Moseng, O. G., Skar, B., Cheung, C., Sandoval-Velasco, Marcela, Wales, N., Schroeder, Hannes, Campos, P. F., Guðmundsdóttir, V. B., Sicheritz-Pontén, Thomas, Petersen, Bent, Halgunset, J., Gilbert, E., Cavalleri, G. L., Hovig, E., Kockum, I., Olsson, T., Alfredsson, L., Hansen, Thomas Folkmann, Werge, Thomas, Willerslev, Eske, Balloux, F., Marques-Bonet, T., Lalueza-Fox, C., Nielsen, Rasmus, Stefánsson, K., Helgason, A. & Gilbert, M Thomas P, 2022, In: Current Biology. 32, 21, p. 4743-4751.e6

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

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    ID: 204201681