| The ectomycorrhizal fungus Pisolithus microcarpus encodes a microRNA involved in cross-kingdom gene silencing during symbiosis J Wong-Bajracharya, VR Singan, R Monti, KL Plett, V Ng, IV Grigoriev, ... Proceedings of the National Academy of Sciences 119 (3), e2103527119, 2022 | 94 | 2022 |
| The regulatory and transcriptional landscape associated with carbon utilization in a filamentous fungus VW Wu, N Thieme, LB Huberman, A Dietschmann, DJ Kowbel, J Lee, ... Proceedings of the National Academy of Sciences 117 (11), 6003-6013, 2020 | 90 | 2020 |
| Contig: Self-supervised multimodal contrastive learning for medical imaging with genetics A Taleb, M Kirchler, R Monti, C Lippert Proceedings of the IEEE/CVF conference on computer vision and pattern …, 2022 | 75 | 2022 |
| Deep learning for genomics using Janggu W Kopp, R Monti, A Tamburrini, U Ohler, A Akalin Nature communications 11 (1), 3488, 2020 | 69 | 2020 |
| Limb-Enhancer Genie: An accessible resource of accurate enhancer predictions in the developing limb R Monti, I Barozzi, M Osterwalder, E Lee, M Kato, TH Garvin, ... PLoS computational biology 13 (8), e1005720, 2017 | 25 | 2017 |
| A switch in transcription and cell fate governs the onset of an epigenetically-deregulated tumor in Drosophila J Torres, R Monti, AL Moore, M Seimiya, Y Jiang, N Beerenwinkel, ... Elife 7, e32697, 2018 | 20 | 2018 |
| A unified framework for estimating country-specific cumulative incidence for 18 diseases stratified by polygenic risk B Jermy, K Läll, BN Wolford, Y Wang, K Zguro, Y Cheng, M Kanai, ... Nature Communications 15 (1), 5007, 2024 | 17 | 2024 |
| Evaluation of polygenic scoring methods in five biobanks shows larger variation between biobanks than methods and finds benefits of ensemble learning R Monti, L Eick, G Hudjashov, K Läll, S Kanoni, BN Wolford, B Wingfield, ... The American Journal of Human Genetics 111 (7), 1431-1447, 2024 | 15 | 2024 |
| Identifying interpretable gene-biomarker associations with functionally informed kernel-based tests in 190,000 exomes R Monti, P Rautenstrauch, M Ghanbari, AR James, M Kirchler, U Ohler, ... Nature communications 13 (1), 5332, 2022 | 14 | 2022 |
| HAPNEST: efficient, large-scale generation and evaluation of synthetic datasets for genotypes and phenotypes S Wharrie, Z Yang, V Raj, R Monti, R Gupta, Y Wang, A Martin, ... Bioinformatics 39 (9), btad535, 2023 | 13 | 2023 |
| Toward identification of functional sequences and variants in noncoding DNA R Monti, U Ohler Annual review of biomedical data science 6 (1), 191-210, 2023 | 8 | 2023 |
| HAPNEST: An efficient tool for generating large-scale genetics datasets from limited training data S Wharrie, Z Yang, V Raj, R Monti, R Gupta, Y Wang, A Martin, ... NeurIPS 2022 Workshop on Synthetic Data for Empowering ML Research, 2022 | 4 | 2022 |
| Evaluation of polygenic scoring methods in five biobanks reveals greater variability between biobanks than between methods and highlights benefits of ensemble learning R Monti, L Eick, G Hudjashov, K Läll, S Kanoni, BN Wolford, B Wingfield, ... Medrxiv, 2023.11. 20.23298215, 2023 | 3 | 2023 |
| Janggu-Deep learning for genomics W Kopp, R Monti, A Tamburrini, U Ohler, A Akalin BioRxiv, 700450, 2019 | 3 | 2019 |
| Copy-number dosage regulates telomere maintenance and disease-associated pathways in neuroblastoma M Burkert, E Blanc, N Thiessen, C Weber, J Toedling, R Monti, ... bioRxiv, 2022.08. 16.504100, 2022 | 1 | 2022 |
| Fast kernel-based rare-variant association tests integrating variant annotations from deep learning S Konigorski, R Monti, P Rautenstrauch, C Lippert GENETIC EPIDEMIOLOGY 44 (5), 495-495, 2020 | 1 | 2020 |
| TransferGWAS of T1-weighted brain MRI data from UK Biobank A Rakowski, R Monti, C Lippert PLoS Genetics 20 (12), e1011332, 2024 | | 2024 |
| Copy-number dosage regulates telomere maintenance and disease-associated pathways in neuroblastoma M Burkert, E Blanc, N Thiessen, C Weber, J Toedling, R Monti, ... Iscience 27 (10), 2024 | | 2024 |
| Metadata-guided feature disentanglement for functional genomics A Rakowski, R Monti, V Huryn, M Lemanczyk, U Ohler, C Lippert Bioinformatics 40 (Supplement_2), ii4-ii10, 2024 | | 2024 |
| INTERVENE: exploring the generalizability of polygenic risk scores on disease B Jermy, K Lall, B Wolford, T Hartonen, Z Yang, R Monti, S Kanoni, ... EUROPEAN JOURNAL OF HUMAN GENETICS 31, 636-637, 2023 | | 2023 |
