| Improved metagenome binning and assembly using deep variational autoencoders JN Nissen, J Johansen, RL Allesøe, CK Sønderby, JJA Armenteros, ... Nature biotechnology 39 (5), 555-560, 2021 | 395 | 2021 |
| Critical assessment of metagenome interpretation: the second round of challenges F Meyer, A Fritz, ZL Deng, D Koslicki, TR Lesker, A Gurevich, G Robertson, ... Nature methods 19 (4), 429-440, 2022 | 273 | 2022 |
| Genome binning of viral entities from bulk metagenomics data J Johansen, DR Plichta, JN Nissen, ML Jespersen, SA Shah, L Deng, ... Nature communications 13 (1), 965, 2022 | 82 | 2022 |
| Discovery of drug–omics associations in type 2 diabetes with generative deep-learning models RL Allesøe, AT Lundgaard, R Hernández Medina, A Aguayo-Orozco, ... Nature biotechnology 41 (3), 399-408, 2023 | 59 | 2023 |
| ATP Level and CO2 Production of Mast Cells in Anaphylaxis B Diamant, S Norn, P Felding, N Olsen, A Ziebell, J Nissen International Archives of Allergy and Immunology 47 (6), 894-908, 1974 | 33 | 1974 |
| Virological surveillance of influenza viruses in the WHO European Region in 2019/20–impact of the COVID-19 pandemic A Melidou, D Pereyaslov, O Hungnes, K Prosenc, E Alm, C Adlhoch, ... Eurosurveillance 25 (46), 2001822, 2020 | 32 | 2020 |
| CoverM: Read coverage calculator for metagenomics STN Aroney, RJP Newell, J Nissen, AP Camargo, GW Tyson, ... Zenodo, 10531254, 2024 | 30 | 2024 |
| Binning microbial genomes using deep learning JN Nissen, CK Sønderby, JJA Armenteros, CH Grønbech, H Bjørn Nielsen, ... biorxiv, 490078, 2018 | 30 | 2018 |
| Novel clade 2.3. 4.4 b highly pathogenic avian influenza A H5N8 and H5N5 viruses in Denmark, 2020 Y Liang, JN Nissen, JS Krog, SØ Breum, R Trebbien, LE Larsen, ... Viruses 13 (5), 886, 2021 | 27 | 2021 |
| Addressing learning needs on the use of metagenomics in antimicrobial resistance surveillance ASR Duarte, KDC Stärk, P Munk, P Leekitcharoenphon, A Bossers, ... Frontiers in Public Health 8, 38, 2020 | 23 | 2020 |
| Two residues determine the product profile of the class II diterpene synthases TPS14 and TPS21 of Tripterygium wilfordii NL Hansen, JN Nissen, B Hamberger Phytochemistry 138, 52-56, 2017 | 23 | 2017 |
| Adversarial and variational autoencoders improve metagenomic binning PP Líndez, J Johansen, S Kutuzova, AI Sigurdsson, JN Nissen, ... Communications Biology 6 (1), 1073, 2023 | 12 | 2023 |
| Experimental infection of pigs and ferrets with “pre-pandemic,” human-adapted, and swine-adapted variants of the H1N1pdm09 influenza A virus reveals significant differences in … C Kristensen, HA Laybourn, JC Crumpton, K Martiny, A Webb, ... PLoS Pathogens 19 (12), e1011838, 2023 | 10 | 2023 |
| Severe human case of zoonotic infection with swine-origin influenza A virus, Denmark, 2021 KM Andersen, LS Vestergaard, JN Nissen, SJ George, P Ryt-Hansen, ... Emerging Infectious Diseases 28 (12), 2561, 2022 | 9 | 2022 |
| Improving folding properties of computationally designed proteins B Bjerre, J Nissen, M Madsen, J Fahrig-Kamarauskaitė, RK Norrild, ... Protein Engineering, Design and Selection 32 (3), 145-151, 2019 | 8 | 2019 |
| Reassortant influenza A (H1N1) pdm09 virus in elderly woman, Denmark, January 2021 JN Nissen, SJ George, CK Hjulsager, JS Krog, XC Nielsen, TV Madsen, ... Emerging Infectious Diseases 27 (12), 3202, 2021 | 4 | 2021 |
| Taxometer: Improving taxonomic classification of metagenomics contigs S Kutuzova, M Nielsen, P Piera, JN Nissen, S Rasmussen Nature Communications 15 (1), 8357, 2024 | 3 | 2024 |
| CoverM: Read alignment statistics for metagenomics STN Aroney, RJP Newell, JN Nissen, AP Camargo, GW Tyson, ... arXiv preprint arXiv:2501.11217, 2025 | 1 | 2025 |
| Binning meets taxonomy: TaxVAMB improves metagenome binning using bi-modal variational autoencoder S Kutuzova, P Piera, K Nor Nielsen, NS Olsen, L Riber, A Gobbi, ... bioRxiv, 2024.10. 25.620172, 2024 | 1 | 2024 |
| N-terminal toxin signal peptides efficiently load therapeutics into a natural nano-injection system EM Steiner-Rebrova, RN Ejaz, CS Kielkopf, MP Ruiz, L Marín-Arraiza, ... bioRxiv, 2023.11. 13.566157, 2023 | 1 | 2023 |
