| Combined analysis of variation in core, accessory and regulatory genome regions provides a super-resolution view into the evolution of bacterial populations A McNally, Y Oren, D Kelly, B Pascoe, S Dunn, T Sreecharan, M Vehkala, ... PLoS genetics 12 (9), e1006280, 2016 | 194 | 2016 |
| M1CR0B1AL1Z3R—a user-friendly web server for the analysis of large-scale microbial genomics data O Avram, D Rapoport, S Portugez, T Pupko Nucleic acids research 47 (W1), W88-W92, 2019 | 99 | 2019 |
| COVID‐19 pandemic‐related lockdown: response time is more important than its strictness TP G Loewenthal, S Abadi, O Avram, K Halabi, N Ecker, N Nagar, I Mayrose EMBO Molecular Medicine 12 (11), e13171, 2020 | 52 | 2020 |
| ModelTeller: model selection for optimal phylogenetic reconstruction using machine learning S Abadi, O Avram, S Rosset, T Pupko, I Mayrose Molecular biology and evolution 37 (11), 3338-3352, 2020 | 35 | 2020 |
| A probabilistic model for indel evolution: differentiating insertions from deletions G Loewenthal, D Rapoport, O Avram, A Moshe, E Wygoda, A Itzkovitch, ... Molecular biology and evolution 38 (12), 5769-5781, 2021 | 25 | 2021 |
| Effectidor: an automated machine-learning-based web server for the prediction of type-III secretion system effectors N Wagner, O Avram, D Gold-Binshtok, B Zerah, D Teper, T Pupko Bioinformatics 38 (8), 2341-2343, 2022 | 24 | 2022 |
| Harnessing machine learning to unravel protein degradation in Escherichia coli T Pupko, N Nagar, N Ecker, G Loewenthal, O Avram, D Ben-Meir, D Biran, ... mSystems, 2021 | 18 | 2021 |
| ASAP - A Web Server for Immunoglobulin-Sequencing Analysis pipeline O Avram, A Vaisman-Mentesh, D Yehezkel, H Ashkenazy, T Pupko, ... Frontiers in immunology 9, 2018 | 18 | 2018 |
| PASA: Proteomic analysis of serum antibodies web server O Avram, A Kigel, A Vaisman-Mentesh, S Kligsberg, S Rosenstein, Y Dror, ... PLOS Computational Biology 17 (1), e1008607, 2021 | 13 | 2021 |
| A phage mechanism for selective nicking of dUMP-containing DNA T Mahata, S Molshanski-Mor, MG Goren, B Jana, M Kohen-Manor, I Yosef, ... Proceedings of the National Academy of Sciences 118 (23), e2026354118, 2021 | 10 | 2021 |
| Motifier: an IgOme profiler based on peptide motifs using machine learning H Ashkenazy, O Avram, A Ryvkin, A Roitburd-Berman, Y Weiss-Ottolenghi, ... Journal of molecular biology 433 (15), 167071, 2021 | 8 | 2021 |
| Inferring indel parameters using a simulation-based approach E Levy Karin, A Rabin, H Ashkenazy, D Shkedy, O Avram, RA Cartwright, ... Genome biology and evolution 7 (12), 3226-3238, 2015 | 6 | 2015 |
| Multiple sequence alignment as a sequence-to-sequence learning problem E Dotan, Y Belinkov, O Avram, E Wygoda, N Ecker, M Alburquerque, ... The Eleventh International Conference on Learning Representations, 2022 | 5 | 2022 |
| Phylogenetic distribution and evolution of type VI secretion system in the Genus Xanthomonas P Liyanapathiranage, N Wagner, O Avram, T Pupko, N Potnis Frontiers in Microbiology 13, 840308, 2022 | 4 | 2022 |
| Domain-Scan: combinatorial sero-diagnosis of infectious diseases using machine learning S Hada-Neeman, Y Weiss-Ottolenghi, N Wagner, O Avram, H Ashkenazy, ... Frontiers in Immunology, 2021 | 3 | 2021 |
| An approximate Bayesian computation approach for modeling genome rearrangements A Moshe, E Wygoda, N Ecker, G Loewenthal, O Avram, O Israeli, ... Molecular biology and evolution 39 (11), msac231, 2022 | 2 | 2022 |
| SLIViT: a general AI framework for clinical-feature diagnosis from limited 3D biomedical-imaging data O Avram, B Durmus, N Rakocz, G Corradetti, U An, MG Nitalla, A Rudas, ... Research Square, 2023 | 1 | 2023 |
| Automated large-scale prediction of exudative AMD progression using machine-read OCT biomarkers A Rudas, JN Chiang, G Corradetti, N Rakocz, O Avram, E Halperin, ... PLOS digital health 2 (2), e0000106, 2023 | 1 | 2023 |
| Prediction of activity in eyes with macular neovascularization due to age-related macular degeneration using deep learning G Corradetti, N Rakocz, JN Chiang, O Avram, AR Alagorie, MG Nittala, ... Eye 38 (5), 819-821, 2024 | | 2024 |
| BetaAlign: a deep learning approach for multiple sequence alignment E Dotan, E Wygoda, N Ecker, M Alburquerque, O Avram, Y Belinkov, ... bioRxiv, 2024.03. 24.586462, 2024 | | 2024 |
Tal PupkoProfessor of Life Sciences, Tel-Aviv UniversityVerified email at post.tau.ac.il
