| NetMHCpan-4.0: improved peptide–MHC class I interaction predictions integrating eluted ligand and peptide binding affinity data V Jurtz, S Paul, M Andreatta, P Marcatili, B Peters, M Nielsen The Journal of Immunology 199 (9), 3360-3368, 2017 | 1409 | 2017 |
| Gapped sequence alignment using artificial neural networks: application to the MHC class I system M Andreatta, M Nielsen Bioinformatics 32 (4), 511-517, 2016 | 1185 | 2016 |
| Improved methods for predicting peptide binding affinity to MHC class II molecules KK Jensen, M Andreatta, P Marcatili, S Buus, JA Greenbaum, Z Yan, ... Immunology 154 (3), 394-406, 2018 | 814 | 2018 |
| NetMHCpan-3.0; improved prediction of binding to MHC class I molecules integrating information from multiple receptor and peptide length datasets M Nielsen, M Andreatta Genome medicine 8, 1-9, 2016 | 572 | 2016 |
| UCell: Robust and scalable single-cell gene signature scoring M Andreatta, SJ Carmona Computational and structural biotechnology journal 19, 3796-3798, 2021 | 474 | 2021 |
| Using electronic patient records to discover disease correlations and stratify patient cohorts FS Roque, PB Jensen, H Schmock, M Dalgaard, M Andreatta, T Hansen, ... PLoS computational biology 7 (8), e1002141, 2011 | 375 | 2011 |
| Interpretation of T cell states from single-cell transcriptomics data using reference atlases M Andreatta, J Corria-Osorio, S Müller, R Cubas, G Coukos, SJ Carmona Nature communications 12 (1), 2965, 2021 | 368 | 2021 |
| Accurate pan-specific prediction of peptide-MHC class II binding affinity with improved binding core identification M Andreatta, E Karosiene, M Rasmussen, A Stryhn, S Buus, M Nielsen Immunogenetics 67, 641-650, 2015 | 367 | 2015 |
| IEDB-AR: immune epitope database—analysis resource in 2019 SK Dhanda, S Mahajan, S Paul, Z Yan, H Kim, MC Jespersen, V Jurtz, ... Nucleic acids research 47 (W1), W502-W506, 2019 | 351 | 2019 |
| Low-dose radiotherapy reverses tumor immune desertification and resistance to immunotherapy FG Herrera, C Ronet, M Ochoa de Olza, D Barras, I Crespo, M Andreatta, ... Cancer discovery 12 (1), 108-133, 2022 | 267 | 2022 |
| GibbsCluster: unsupervised clustering and alignment of peptide sequences M Andreatta, B Alvarez, M Nielsen Nucleic acids research 45 (W1), W458-W463, 2017 | 227 | 2017 |
| Simultaneous alignment and clustering of peptide data using a Gibbs sampling approach M Andreatta, O Lund, M Nielsen Bioinformatics 29 (1), 8-14, 2013 | 171 | 2013 |
| Predicting HLA CD4 immunogenicity in human populations SK Dhanda, E Karosiene, L Edwards, A Grifoni, S Paul, M Andreatta, ... Frontiers in immunology 9, 1369, 2018 | 127 | 2018 |
| NNAlign_MA; MHC peptidome deconvolution for accurate MHC binding motif characterization and improved T-cell epitope predictions B Alvarez, B Reynisson, C Barra, S Buus, N Ternette, T Connelley, ... Molecular & Cellular Proteomics 18 (12), 2459-2477, 2019 | 124 | 2019 |
| Dissecting the treatment-naive ecosystem of human melanoma brain metastasis J Biermann, JC Melms, AD Amin, Y Wang, LA Caprio, A Karz, S Tagore, ... Cell 185 (14), 2591-2608. e30, 2022 | 116 | 2022 |
| An automated benchmarking platform for MHC class II binding prediction methods M Andreatta, T Trolle, Z Yan, JA Greenbaum, B Peters, M Nielsen Bioinformatics 34 (9), 1522-1528, 2018 | 89 | 2018 |
| Footprints of antigen processing boost MHC class II natural ligand predictions C Barra, B Alvarez, S Paul, A Sette, B Peters, M Andreatta, S Buus, ... Genome medicine 10, 1-15, 2018 | 79 | 2018 |
| NNAlign: a platform to construct and evaluate artificial neural network models of receptor–ligand interactions M Nielsen, M Andreatta Nucleic acids research 45 (W1), W344-W349, 2017 | 79 | 2017 |
| Immunoinformatics: predicting peptide–MHC binding M Nielsen, M Andreatta, B Peters, S Buus Annual review of biomedical data science 3 (1), 191-215, 2020 | 78 | 2020 |
| IL-10-expressing CAR T cells resist dysfunction and mediate durable clearance of solid tumors and metastases Y Zhao, J Chen, M Andreatta, B Feng, YQ Xie, M Wenes, Y Wang, M Gao, ... Nature Biotechnology, 1-12, 2024 | 70 | 2024 |
Morten NielsenDepartment of Health Technology, The Technical University ofVerified email at cbs.dtu.dk