| ResFinder 4.0 for predictions of phenotypes from genotypes V Bortolaia, RS Kaas, E Ruppe, MC Roberts, S Schwarz, V Cattoir, ... Journal of Antimicrobial Chemotherapy 75 (12), 3491-3500, 2020 | 1798 | 2020 |
| Neoantigen vaccine generates intratumoral T cell responses in phase Ib glioblastoma trial DB Keskin, AJ Anandappa, J Sun, I Tirosh, ND Mathewson, S Li, ... Nature 565 (7738), 234-239, 2019 | 1109 | 2019 |
| PointFinder: a novel web tool for WGS-based detection of antimicrobial resistance associated with chromosomal point mutations in bacterial pathogens E Zankari, R Allesøe, KG Joensen, LM Cavaco, O Lund, FM Aarestrup Journal of Antimicrobial Chemotherapy 72 (10), 2764-2768, 2017 | 611 | 2017 |
| Personal neoantigen vaccines induce persistent memory T cell responses and epitope spreading in patients with melanoma Z Hu, DE Leet, RL Allesøe, G Oliveira, S Li, AM Luoma, J Liu, J Forman, ... Nature medicine 27 (3), 515-525, 2021 | 306 | 2021 |
| 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 | 264 | 2021 |
| SCCmecFinder, a Web-Based Tool for Typing of Staphylococcal Cassette Chromosome mec in Staphylococcus aureus Using Whole-Genome Sequence Data H Kaya, H Hasman, J Larsen, M Stegger, TB Johannesen, RL Allesøe, ... Msphere 3 (1), 10.1128/msphere. 00612-17, 2018 | 214* | 2018 |
| Development of a Web Tool for Escherichia coli Subtyping Based on fimH Alleles L Roer, V Tchesnokova, R Allesøe, M Muradova, S Chattopadhyay, ... Journal of clinical microbiology 55 (8), 2538-2543, 2017 | 154 | 2017 |
| CHTyper, a Web Tool for Subtyping of Extraintestinal Pathogenic Escherichia coli Based on the fumC and fimH Alleles L Roer, TB Johannesen, F Hansen, M Stegger, V Tchesnokova, ... Journal of clinical microbiology 56 (4), 10.1128/jcm. 00063-18, 2018 | 53 | 2018 |
| Immunity and mental illness: findings from a Danish population-based immunogenetic study of seven psychiatric and neurodevelopmental disorders R Nudel, ME Benros, MD Krebs, RL Allesøe, CK Lemvigh, ... European Journal of Human Genetics 27 (9), 1445-1455, 2019 | 47 | 2019 |
| SCCmecFinder, a web-based tool for typing of staphylococcal cassette chromosome mec in Staphylococcus aureus using whole-genome sequence data. mSphere 3: e00612-17 H Kaya, H Hasman, J Larsen, M Stegger, TB Johannesen, RL Allesøe, ... Article PubMed PubMed Central, 2018 | 47 | 2018 |
| RNase H–dependent PCR-enabled T-cell receptor sequencing for highly specific and efficient targeted sequencing of T-cell receptor mRNA for single-cell and repertoire analysis S Li, J Sun, R Allesøe, K Datta, Y Bao, G Oliveira, J Forman, R Jin, ... Nature protocols 14 (8), 2571-2594, 2019 | 33 | 2019 |
| 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 | 28 | 2023 |
| Genetic factors underlying the bidirectional relationship between autoimmune and mental disorders–findings from a Danish population-based study X Liu, R Nudel, WK Thompson, V Appadurai, AJ Schork, A Buil, ... Brain, behavior, and immunity 91, 10-23, 2021 | 19* | 2021 |
| Direct whole-genome sequencing of Plasmodium falciparum specimens from dried erythrocyte spots S Nag, PE Kofoed, J Ursing, CK Lemvigh, RL Allesøe, A Rodrigues, ... Malaria journal 17, 1-8, 2018 | 16 | 2018 |
| ResFinder 4.0 for predictions of phenotypes from genotypes., 2020, 75 V Bortolaia, RS Kaas, E Ruppe, MC Roberts, S Schwarz, V Cattoir, ... DOI: https://doi. org/10.1093/jac/dkaa345, 3491-3500, 0 | 16 | |
| Deep learning for cross-diagnostic prediction of mental disorder diagnosis and prognosis using Danish Nationwide register and genetic data RL Allesøe, WK Thompson, J Bybjerg-Grauholm, DM Hougaard, ... JAMA psychiatry 80 (2), 146-155, 2023 | 12 | 2023 |
| Deep learning–based integration of genetics with registry data for stratification of schizophrenia and depression RL Allesøe, R Nudel, WK Thompson, Y Wang, M Nordentoft, AD Børglum, ... Science advances 8 (26), eabi7293, 2022 | 6 | 2022 |
| Metaphylogenetic analysis of global sewage reveals that bacterial strains associated with human disease show less degree of geographic clustering J Ahrenfeldt, M Waisi, IC Loft, PTLC Clausen, R Allesøe, J Szarvas, ... Scientific reports 10 (1), 3033, 2020 | 6 | 2020 |
| An immunogenetic investigation of 30 autoimmune and autoinflammatory diseases and their links to psychiatric disorders in a nationwide sample R Nudel, RL Allesøe, T Werge, WK Thompson, S Rasmussen, ME Benros Immunology 168 (4), 622-639, 2023 | 5 | 2023 |
| A large-scale investigation into the role of classical HLA loci in multiple types of severe infections, with a focus on overlaps with autoimmune and mental disorders R Nudel, RL Allesøe, WK Thompson, T Werge, S Rasmussen, ME Benros Journal of translational medicine 19 (1), 230, 2021 | 5 | 2021 |
