| Orange: data mining toolbox in Python J Demšar, T Curk, A Erjavec, Č Gorup, T Hočevar, M Milutinovič, ... the Journal of machine Learning research 14 (1), 2349-2353, 2013 | 1249 | 2013 |
| Modeling polypharmacy side effects with graph convolutional networks M Zitnik, M Agrawal, J Leskovec Bioinformatics 34 (13), 457-466, 2018 | 450 | 2018 |
| Predicting multicellular function through multi-layer tissue networks M Zitnik, J Leskovec Bioinformatics 33 (14), 190-198, 2017 | 295 | 2017 |
| Open graph benchmark: Datasets for machine learning on graphs W Hu, M Fey, M Zitnik, Y Dong, H Ren, B Liu, M Catasta, J Leskovec arXiv preprint arXiv:2005.00687, 2020 | 281 | 2020 |
| Gnnexplainer: Generating explanations for graph neural networks R Ying, D Bourgeois, J You, M Zitnik, J Leskovec Advances in neural information processing systems 32, 9240, 2019 | 231* | 2019 |
| Learning Structural Node Embeddings via Diffusion Wavelets C Donnat, M Zitnik, D Hallac, J Leskovec Proceedings of the 24th ACM SIGKDD International Conference on Knowledge …, 2018 | 217* | 2018 |
| Machine learning for integrating data in biology and medicine: Principles, practice, and opportunities M Zitnik, F Nguyen, B Wang, J Leskovec, A Goldenberg, MM Hoffman Information Fusion 50, 71-91, 2019 | 194 | 2019 |
| Strategies for pre-training graph neural networks W Hu, B Liu, J Gomes, M Zitnik, P Liang, V Pande, J Leskovec arXiv preprint arXiv:1905.12265, 2019 | 183 | 2019 |
| Data Fusion by Matrix Factorization M Zitnik, B Zupan Pattern Analysis and Machine Intelligence, IEEE Transactions on 37 (1), 41-53, 2015 | 175* | 2015 |
| Cross-type biomedical named entity recognition with deep multi-task learning X Wang, Y Zhang, X Ren, Y Zhang, M Zitnik, J Shang, C Langlotz, J Han Bioinformatics 35 (10), 1745-1752, 2019 | 150 | 2019 |
| Predicting human olfactory perception from chemical features of odor molecules PM A. Keller, R.C. Gerkin, Y. Guan, A. Dhurandhar, G. Turu, B. Szalai, J.D ... Science 355 (6327), 820-826, 2017 | 141 | 2017 |
| Embedding Logical Queries on Knowledge Graphs WL Hamilton, P Bajaj, M Zitnik, D Jurafsky, J Leskovec arXiv preprint arXiv:1806.01445, 2018 | 118 | 2018 |
| Genome-wide localization study of yeast Pex11 identifies peroxisome–mitochondria interactions through the ERMES complex MM Ušaj, M Brložnik, P Kaferle, M Žitnik, H Wolinski, F Leitner, ... Journal of Molecular Biology 427 (11), 2072-2087, 2015 | 115 | 2015 |
| Network medicine framework for identifying drug-repurposing opportunities for COVID-19 DM Gysi, Í Do Valle, M Zitnik, A Ameli, X Gan, O Varol, SD Ghiassian, ... Proceedings of the National Academy of Sciences 118 (19), 2021 | 113 | 2021 |
| Discovering disease-disease associations by fusing systems-level molecular data M Žitnik, V Janjić, C Larminie, B Zupan, N Pržulj Scientific Reports 3, 3202, 2013 | 93 | 2013 |
| Orthogonal matrix factorization enables integrative analysis of multiple RNA binding proteins M Stražar, M Žitnik, B Zupan, J Ule, T Curk Bioinformatics 32 (10), 1527-1535, 2016 | 84 | 2016 |
| NIMFA : A Python Library for Nonnegative Matrix Factorization M Zitnik, B Zupan Journal of Machine Learning Research 13, 849-853, 2012 | 80 | 2012 |
| Network Enhancement as a general method to denoise weighted biological networks B Wang*, A Pourshafeie*, M Zitnik*, (*first co-author), J Zhu, ... Nature Communications 9, 3108, 2018 | 64 | 2018 |
| Large-scale analysis of disease pathways in the human interactome M Agrawal*, M Zitnik*, (*first co-author), J Leskovec Pacific Symposium on Biocomputing 23, 111--122, 2018 | 62 | 2018 |
| A comprehensive structural, biochemical and biological profiling of the human NUDIX hydrolase family J Carreras-Puigvert, M Zitnik, AS Jemth, M Carter, JE Unterlass, ... Nature Communications 8 (1), 1541, 2017 | 60 | 2017 |
