---
title: "Marinka Žitnik — all works — Elamur Research"
description: "All 26 works of Marinka Žitnik in the Elamur Research library, the most cited first: our summaries where we have them, else the original."
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---
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# Marinka Žitnik — all works

26 works · [← Marinka Žitnik](https://md.research.elamur.ai/free/en/authors/marinka-zitnik/)

1. **[Scientific discovery in the age of artificial intelligence ↗](https://doi.org/10.1038/s41586-023-06221-2) Nature 620, 47-60 (2023) · no summary yet**Hanchen Wang et al.*2023 · 1,860 citations*
2. **[Modeling polypharmacy side effects with graph convolutional networks ↗](https://doi.org/10.1093/bioinformatics/bty294) Bioinformatics · no summary yet**Marinka Žitnik, Monica Agrawal, Jure Leskovec*2018 · 1,517 citations*
3. **[Open Graph Benchmark: Datasets for Machine Learning on Graphs ↗](https://arxiv.org/abs/2005.00687) arXiv:2005.00687 · no summary yet**Weihua Hu et al.*2020 · 712 citations*
4. **[GNNExplainer: Generating Explanations for Graph Neural Networks ↗](https://arxiv.org/abs/1903.03894) arXiv (Cornell University) · no summary yet**Rex Ying et al.*2019 · 685 citations*
5. **[Machine learning for integrating data in biology and medicine: Principles, practice, and opportunities ↗](https://doi.org/10.1016/j.inffus.2018.09.012) Information Fusion · no summary yet**Marinka Žitnik et al.*2018 · 663 citations*
6. **[Building a knowledge graph to enable precision medicine](https://md.research.elamur.ai/free/en/papers/chandak-2023-building-knowledge-graph-enable-precision/) [Scientific Data](https://md.research.elamur.ai/free/en/venues/scientific-data/)**Payal Chandak, Kexin Huang, Marinka Žitnik*2023 · 555 citations*
7. **[Predicting multicellular function through multi-layer tissue networks ↗](https://doi.org/10.1093/bioinformatics/btx252) Bioinformatics · no summary yet**Marinka Žitnik, Jure Leskovec*2017 · 542 citations*
8. **[Learning Structural Node Embeddings via Diffusion Wavelets ↗](https://doi.org/10.1145/3219819.3220025) ACM SIGKDD International Conference on Knowledge Discovery & Data Mining (KDD) · no summary yet**Claire Donnat et al.*2018 · 366 citations*
9. **[Empowering Biomedical Discovery with AI Agents ↗](https://arxiv.org/abs/2404.02831) arXiv:2404.02831 · no summary yet**Shanghua Gao et al.*2024 · 333 citations*
10. **[A foundation model for clinician-centered drug repurposing ↗](https://doi.org/10.1038/s41591-024-03233-x) Nature Medicine · no summary yet**Kexin Huang et al.*2024 · 249 citations*
11. **[Strategies for Pre-training Graph Neural Networks ↗](https://arxiv.org/abs/1905.12265) arXiv (Cornell University) · no summary yet**Weihua Hu et al.*2019 · 228 citations*
12. **[Self-Supervised Contrastive Pre-Training for Time Series Via Time-Frequency Consistency ↗](https://doi.org/10.52202/068431-0288) neural information processing systems · no summary yet**Xiang Zhang et al.*2022 · 210 citations*
13. **[Artificial intelligence foundation for therapeutic science ↗](https://doi.org/10.1038/s41589-022-01131-2) Nature Chemical Biology · no summary yet**Kexin Huang et al.*2022 · 201 citations*
14. **[Identification of disease treatment mechanisms through the multiscale interactome ↗](https://doi.org/10.1038/s41467-021-21770-8) Nature Communications · no summary yet**Camilo Ruiz, Marinka Žitnik, Jure Leskovec*2021 · 168 citations*
15. **[To Embed or Not: Network Embedding as a Paradigm in Computational Biology ↗](https://doi.org/10.3389/fgene.2019.00381) Frontiers in Genetics · no summary yet**Walter Nelson et al.*2019 · 167 citations*
16. **[Network enhancement as a general method to denoise weighted biological networks ↗](https://doi.org/10.1038/s41467-018-05469-x) Nature Communications · no summary yet**Bo Wang et al.*2018 · 157 citations*
17. **[Therapeutics Data Commons: Machine Learning Datasets and Tasks for Drug Discovery and Development ↗](https://arxiv.org/abs/2102.09548) arXiv (Cornell University) · no summary yet**Kexin Huang et al.*2021 · 156 citations*
18. **[Evolution of resilience in protein interactomes across the tree of life ↗](https://doi.org/10.1073/pnas.1818013116) Proceedings of the National Academy of Sciences · no summary yet**Marinka Žitnik et al.*2019 · 133 citations*
19. **[Embedding Logical Queries on Knowledge Graphs ↗](https://arxiv.org/abs/1806.01445) arXiv:1806.01445 · no summary yet**William L. Hamilton et al.*2018 · 108 citations*
20. **[Large-scale analysis of disease pathways in the human interactome ↗](https://doi.org/10.1142/9789813235533_0011) Pacific Symposium on Biocomputing (PSB) · no summary yet**Monica Agrawal, Marinka Žitnik, Jure Leskovec*2017 · 106 citations*
21. **[Leveraging the Cell Ontology to classify unseen cell types ↗](https://doi.org/10.1038/s41467-021-25725-x) Nature Communications · no summary yet**Sheng Wang et al.*2021 · 65 citations*
22. **[Prioritizing network communities ↗](https://doi.org/10.1038/s41467-018-04948-5) Nature Communications · no summary yet**Marinka Žitnik, Rok Sosič, Jure Leskovec*2018 · 57 citations*
23. **[TxAgent: An AI Agent for Therapeutic Reasoning Across a Universe of Tools ↗](https://arxiv.org/abs/2503.10970) arXiv:2503.10970 · no summary yet**Shanghua Gao et al.*2025 · 17 citations*
24. **[Identification of disease treatment mechanisms through the multiscale interactome ↗](https://doi.org/10.1101/2020.04.30.069690) RePEc: Research Papers in Economics · no summary yet**Camilo Ruiz, Marinka Žitnik, Jure Leskovec*7 citations*
25. **[Mutual interactors as a principle for phenotype discovery in molecular interaction networks ↗](https://doi.org/10.1142/9789811270611_0007) Pacific Symposium on Biocomputing (PSB) · no summary yet**Sabri Eyuboglu, Marinka Žitnik, Jure Leskovec*2022 · 2 citations*
26. **[Autonomous Knowledge Graph Exploration with Adaptive Breadth-Depth Retrieval](https://md.research.elamur.ai/free/en/papers/polonuer-2026-autonomous-knowledge-graph-exploration-adaptive/) [Annual Meeting of the Association for Computational Linguistics (ACL)](https://md.research.elamur.ai/free/en/venues/acl/)**Joaquin Polonuer, Lucas Vittor, Iñaki Arango, et al.*2026*