Simon Rasmussen
Associate professor, group leader, Professor
Rasmussen Group
Blegdamsvej 3B, Building: 06-2-24
2200 København N
Rasmussen Group
- 2024
- 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, , 2024, In: Nature. 625, 7994, p. 329-337 9 p.Research output: Contribution to journal › Journal article › peer-review
- Published
FAVA: High-quality functional association networks inferred from scRNA-seq and proteomics data
Koutrouli, Mikaela, Nastou, Katerina, Piera Líndez, Pau, Bouwmeester, R., Rasmussen, Simon, Martens, L. & Jensen, Lars Juhl, 2024, In: Bioinformatics. 40, 2, 11 p., btae010.Research output: Contribution to journal › Journal article › peer-review
- Published
Mass spectrometry-based proteomics data from thousands of HeLa control samples
Webel, Henry, Perez-Riverol, Y., Nielsen, Annelaura Bach & Rasmussen, Simon, 2024, In: Scientific Data. 11, 7 p., 112.Research output: Contribution to journal › Journal article › peer-review
- 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, , 2024, In: Nature. 625, 7994, p. 301-311Research output: Contribution to journal › Journal article › peer-review
- Published
The evolutionary impact of childhood cancer on the human gene pool
Stoltze, U. K., Foss-Skiftesvik, J., Hansen, Thomas van Overeem, Rasmussen, Simon, Karczewski, K. J., Wadt, Karin Anna Wallentin & Schmiegelow, Kjeld, 2024, In: Nature Communications. 15, 15 p., 1881.Research output: Contribution to journal › Journal article › peer-review
- 2023
- Published
Acknowledging Lack of Inclusion in Genetic Analyses-Reply
Benros, Michael Eriksen, Allesøe, R. L. & Rasmussen, Simon, 2023, In: JAMA Psychiatry. 80, 6, p. 647-648Research output: Contribution to journal › Comment/debate
- Published
An immunogenetic investigation of 30 autoimmune and autoinflammatory diseases and their links to psychiatric disorders in a nationwide sample
Nudel, R., Allesøe, R. L., Werge, Thomas, Thompson, W. K., Rasmussen, Simon & Benros, Michael Eriksen, 2023, In: Immunology. 168, 4, p. 622-639Research output: Contribution to journal › Journal article › peer-review
- Published
Centenarians have a diverse gut virome with the potential to modulate metabolism and promote healthy lifespan
Johansen, Joachim, Atarashi, K., Arai, Y., Hirose, N., Sørensen, Søren Johannes, Vatanen, T., Knip, M., Honda, K., Xavier, R. J., Rasmussen, Simon & Plichta, D. R., 2023, In: Nature Microbiology. 8, p. 1064-1078 18 p.Research output: Contribution to journal › Journal article › peer-review
- Published
Combinatorial batching of DNA for ultralow-cost detection of pathogenic variants
Stoltze, U. K., Hagen, C. M., Hansen, Thomas van Overeem, Byrjalsen, A., Gerdes, Anne-Marie Axø, Yakimov, V., Rasmussen, Simon, Bækvad-Hansen, M., Hougaard, D. M., Schmiegelow, Kjeld, Hjalgrim, Henrik, Wadt, Karin Anna Wallentin & Bybjerg-Grauholm, J., 2023, In: Genome Medicine. 15, 12 p., 17.Research output: Contribution to journal › Journal article › peer-review
- Published
Deep Learning for Cross-Diagnostic Prediction of Mental Disorder Diagnosis and Prognosis Using Danish Nationwide Register and Genetic Data
Allesøe, R. L., Thompson, W. K., Bybjerg-Grauholm, J., Hougaard, D. M., Nordentoft, Merete, Werge, Thomas, Rasmussen, Simon & Benros, Michael Eriksen, 2023, In: JAMA Psychiatry. 80, 2, p. 146-155 10 p.Research output: Contribution to journal › Journal article › peer-review
- Published
Deep integrative models for large-scale human genomics
Sigurdsson, Arnór Ingi, Louloudis, Ioannis, Banasik, Karina, Westergaard, David, Winther, Ole, Lund, O., Ostrowski, Sisse Rye, Erikstrup, C., Pedersen, Ole Birger Vesterager, Nyegaard, Mette, Brunak, Søren, Vilhjálmsson, B. & Rasmussen, Simon, 2023, In: Nucleic Acids Symposium Series. 51, 12, 16 p.Research output: Contribution to journal › Journal article › peer-review
- Published
Discovery of drug-omics associations in type 2 diabetes with generative deep-learning models: [with Author Correction]
Allesøe, R. L., Lundgaard, A. T., Hernández Medina, R., Aguayo-Orozco, A., Johansen, J., Nissen, J. N., Brorsson, C., Mazzoni, G., Niu, L., Biel, J. H., Brasas, V., Webel, H., Benros, M. E., Pedersen, A. G., Chmura, P. J., Jacobsen, U. P., Mari, A., Koivula, R., Mahajan, A., Vinuela, A. & 31 others, , 2023, In: Nature Biotechnology. 41, 3, p. 399–408 18 p.Research output: Contribution to journal › Journal article › peer-review
- Published
Genetic analysis of blood molecular phenotypes reveals common properties in the regulatory networks affecting complex traits
Brown, A. A., Fernandez-Tajes, J. J., Hong, M. G., Brorsson, C. A., Koivula, R. W., Davtian, D., Dupuis, T., Sartori, A., Michalettou, T. D., Forgie, I. M., Adam, J., Allin, K. H., Caiazzo, R., Cederberg, H., De Masi, F., Elders, P. J. M., Giordano, G. N., Haid, M., Hansen, T., Hansen, T. H. & 134 others, , 2023, In: Nature Communications. 14, 17 p., 5062.Research output: Contribution to journal › Journal article › peer-review
- Published
Genetic predisposition & evolutionary traces of pediatric cancer risk: a prospective 5-year population-based genome sequencing study of children with CNS tumors
Stoltze, U. K., Foss-Skiftesvik, J., Hansen, Thomas van Overeem, Byrjalsen, A., Sehested, A., Scheie, David, Mikkelsen, T. S., Rasmussen, Simon, Bak, M., Okkels, H., Callesen, M. T., Skjøth-Rasmussen, J., Gerdes, Anne-Marie Axø, Schmiegelow, Kjeld, Mathiasen, R. & Wadt, Karin Anna Wallentin, 2023, In: Neuro-Oncology. 25, 4, p. 761-773Research output: Contribution to journal › Journal article › peer-review
- Published
Global within-species phylogenetics of sewage microbes suggest that local adaptation shapes geographical bacterial clustering
Jespersen, Marie Louise, Munk, P., Johansen, Joachim, Kaas, R. S., Webel, Henry, Vigre, H., Nielsen, H. B., Rasmussen, Simon & Aarestrup, F. M., 2023, In: Communications Biology . 6, 9 p., 700.Research output: Contribution to journal › Journal article › peer-review
- 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 › peer-review
- Published
Markers of inflammation predict survival in newly diagnosed cirrhosis: a prospective registry study
Mynster Kronborg, T., Webel, Henry, O’Connell, M. B., Danielsen, K. V., Hobolth, L., Møller, Søren, Jensen, Rasmus Tanderup, Bendtsen, Flemming, Hansen, Torben, Rasmussen, Simon, Juel, H. B. & Kimer, N., 2023, In: Scientific Reports. 13, 11 p., 20039.Research output: Contribution to journal › Journal article › peer-review
- 2022
- 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. & 83 others, , 2022, In: Nature Methods. 19, 4, p. 429-440Research output: Contribution to journal › Journal article › peer-review
- 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 › peer-review
- 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 › peer-review
- 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 › peer-review
- 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 › peer-review
- 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 › peer-review
- Published
Population Genomics of Stone Age 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., Mota, B., Paulsson, B. S., Halgren, A., Macleod, R., Schjellerup Jørkov, M. L., Demeter, F., Novosolov, M., Sørensen, L., Nielsen, P-O., Henriksen, R. H. A. & 143 others, , 2022, p. 1-71, (bioRxiv).Research output: Working paper › Preprint › Research
- 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, Viswalingam, K. S., 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 › peer-review
ID: 204201681
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1358
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Genome-scale cold stress response regulatory networks in ten Arabidopsis thaliana ecotypes
Research output: Contribution to journal › Journal article › peer-review
Published -
601
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Bifidobacterium bifidum actively changes the gene expression profile induced by Lactobacillus acidophilus in murine dendritic cells
Research output: Contribution to journal › Journal article › peer-review
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427
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Discovery, genotyping and characterization of structural variation and novel sequence at single nucleotide resolution from de novo genome assemblies on a population scale
Research output: Contribution to journal › Journal article › peer-review
Published