| 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 | 267 | 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 | 196 | 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 | 56 | 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 | 29 | 2023 |
| Binning microbial genomes using deep learning JN Nissen, CK Sønderby, JJA Armenteros, CH Grønbech, H Bjørn Nielsen, ... biorxiv, 490078, 2018 | 29 | 2018 |
| 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 | 28 | 2020 |
| 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 | 21 | 2021 |
| 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 | 18 | 2017 |
| 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 | 16 | 2020 |
| 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 | 6 | 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 | 6 | 2019 |
| 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 | 3 | 2023 |
| Adversarial and variational autoencoders improve metagenomic binning PP Líndez, J Johansen, S Kutuzova, AI Sigurdsson, JN Nissen, ... Communications Biology 6 (1), 1073, 2023 | 3 | 2023 |
| 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 | 3 | 2021 |
| BinBencher: Fast, flexible and meaningful benchmarking suite for metagenomic binning JN Nissen, PP Lindez, S Rasmussen bioRxiv, 2024.05. 06.592671, 2024 | | 2024 |
| Author Correction: 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 (7), 1026-1026, 2023 | | 2023 |
| Author Correction: Discovery of drugâ omics associations in type 2 diabetes with generative deep-learning models (Nature Biotechnology,(2023), 41, 3,(399-408), 10.1038/s41587 … AT Lundgaard, A Aguayo-Orozco, J Johansen, JN Nissen, C Brorsson, ... Nature Research, 2023 | | 2023 |
| N-terminal toxin signal peptides efficiently load therapeutics into a natural nano-injection system EM Steiner-Rebrova, RN Ejaz, CS Kielkopf, M Perez Ruiz, ... bioRxiv, 2023.11. 13.566157, 2023 | | 2023 |
| Identifying amino acid substitutions involved in the zoonotic transmission of the 2009 pandemic H1N1 using phylogenetic and ancestral inference analysis KM Andersen, JN Nissen, AG Pedersen, R Trebbien ISIRV-WHO Virtual Conference, 2021 | | 2021 |
| Identification of amino acid substitutions involved in the zoonotic transmission of the 2009 pandemic H1N1 using phylogenetic and ancestral inference analyses KM Andersen, JN Nissen, AG Pedersen, R Trebbien Eighth ESWI Influenza Conference, 2021 | | 2021 |
