Joachim Johansen

Joachim Johansen

Postdoc

Member of:

    ORCID: 0000-0001-7052-1870

    Publication year:
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    1 - 10 out of 12Page size: 10
    1. 2023
    2. Published

      Adversarial and variational autoencoders improve metagenomic binning

      Piera Líndez, Pau, Johansen, Joachim, Kutuzova, Svetlana, Sigurdsson, Arnór Ingi, Nissen, Jakob Nybo & Rasmussen, S., 2023, In: Communications Biology . 6, 10 p., 1073.

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

    3. 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 › Research › peer-review

    4. Published

      Discovery of drug-omics associations in type 2 diabetes with generative deep-learning models: [with Author Correction]

      Allesøe, R. L., Lundgaard, Agnete Troen, Hernandez Medina, Ricardo, Aguayo-Orozco, A., Johansen, Joachim, Nissen, Jakob Nybo, Brorsson, C., Mazzoni, G., Niu, Lili, Hernansanz Biel, Jorge, Brasas, V., Webel, Henry, Benros, Michael Eriksen, Pedersen, A. G., Chmura, Piotr Jaroslaw, Jacobsen, Ulrik Plesner, Mari, A., Koivula, R., Mahajan, A., Vinuela, A., Tajes, J. F., Sharma, S., Haid, M., Hong, M., Musholt, P. B., De Masi, F., Vogt, J., Pedersen, H. K., Gudmundsdottir, V., Jones, A., Kennedy, G., Bell, J., Thomas, E. L., Frost, G., Thomsen, Henrik S., Hansen, E., Hansen, T. H., drb459, drb459, Muilwijk, M., Blom, M. T., 't Hart, L. M., Pattou, F., Raverdy, V., Brage, S., Ridderstråle, M., Pedersen, Oluf Borbye, Hansen, Torben, Banasik, Karina, Rasmussen, Simon, Brunak, Søren & IMI-DIRECT consortium, I. C., 2023, In: Nature Biotechnology. 41, 3, p. 399–408 18 p.

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

    5. 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, Torben, Hansen, T. H., Hattersley, A. T., Heggie, A. J., Howald, C., Jones, A. G., Kokkola, T., Laakso, M., Mahajan, A., Mari, A., McDonald, T. J., McEvoy, D., Mourby, M., Musholt, P. B., Nilsson, B., Pattou, F., Penet, D., Raverdy, V., Ridderstråle, M., Romano, L., Rutters, F., Sharma, S., Teare, H., ‘t Hart, L., Tsirigos, Konstantinos, Vangipurapu, J., drb459, drb459, Brunak, Søren, Franks, P. W., Frost, G., Grallert, H., Jablonka, B., McCarthy, M. I., Pavo, I., Pedersen, Oluf Borbye, Ruetten, H., Walker, M., Adragni, K., Allesøe, R. L. L., Artati, A. A., Arumugam, Mani, Atabaki-Pasdar, N., Baltauss, T., Banasik, Karina, Barnett, A. L., Baum, P., Bell, J. D., Beulens, J. W., Bianzano, S. B., Bizzotto, R., Bonnefond, A., Cabrelli, L., Dale, M., Dawed, A. Y., de Preville, N., Dekkers, K. F., Deshmukh, H. A., Dings, C., Donnelly, L., Dutta, A., Ehrhardt, B., pjx571, pjx571, Eriksen, R., Fan, Yong, Ferrer, J., Fitipaldi, H., Forman, A., Fritsche, A., Froguel, P., Gassenhuber, J., Gough, S., Graefe-Mody, U., Grempler, R., Groeneveld, L., Groop, L., Gudmundsdóttir, V., Gupta, R., Hennige, A. M. H., Hill, A. V., Holl, R. W., Hudson, M., Jacobsen, Ulrik Plesner, Jennison, C., Johansen, Joachim, Jonsson, Anna Elisabet, Karaderi, Tugce, Kaye, J., Kennedy, G., Klintenberg, M., Kuulasmaa, T., Lehr, T., Loftus, H., Lundgaard, Agnete Troen, Mazzoni, G., McRobert, N., McVittie, I., Nice, R., Nicolay, C., Nijpels, G., Palmer, C. N., Pedersen, H. K., Perry, M. H., Pomares-Millan, H., Prehn, C. P., Ramisch, A., Rasmussen, Simon, Robertson, N., Rodriquez, M., Sackett, P., Scherer, N., Shah, N., Sihinevich, I., Slieker, R. C., Sondertoft, N. B., Steckel-Hamann, B., Thomas, M. K., Thomas, Cecilia Engel, Thomas, E. L. L., Thorand, B., Thorne, C. E., Tillner, J., Tura, A., Uhlen, M., van Leeuwen, N., van Oort, S., Verkindt, H., Vogt, J., Wad Sackett, P. W., Wesolowska-Andersen, A., Whitcher, B., White, M. W., Adamski, J., Schwenk, J. M., Pearson, E. R., Dermitzakis, E. T. & Viñuela, A., 2023, In: Nature Communications. 14, 17 p., 5062.

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

    6. 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 › Research › peer-review

    7. 2022
    8. 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

    9. 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

    10. 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

    11. Published

      The CD4+ T cell response to a commensal-derived epitope transitions from a tolerant to an inflammatory state in Crohn's disease

      Pedersen, T. K., Brown, E. M., Plichta, D. R., Johansen, Joachim, Twardus, S. W., Delorey, T. M., Lau, H., Vlamakis, H., Moon, J. J., Xavier, R. J. & Graham, D. B., 2022, In: Immunity. 55, 10, p. 1909-1923.e6

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

    12. 2021
    13. Published

      Improved metagenome binning and assembly using deep variational autoencoders

      Nissen, J. N., Johansen, Joachim, Allesoe, R. L., Sonderby, C. K., Armenteros, J. J. A., Grønbech, Christopher Heje, Jensen, Lars Juhl, Nielsen, H. B., Petersen, T. N., Winther, Ole & Rasmussen, Simon, 2021, In: Nature Biotechnology. 39, p. 555-560

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

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    ID: 224983789