| Topsy-Turvy: integrating a global view into sequence-based PPI prediction R Singh, K Devkota, S Sledzieski, B Berger, L Cowen Bioinformatics 38 (Supplement_1), i264-i272, 2022 | 29 | 2022 |
| GLIDE: combining local methods and diffusion state embeddings to predict missing interactions in biological networks K Devkota, JM Murphy, LJ Cowen Bioinformatics 36 (Supplement_1), i464-i473, 2020 | 21 | 2020 |
| Bioengineered models of Parkinson’s disease using patient-derived dopaminergic neurons exhibit distinct biological profiles in a 3D microenvironment NJ Fiore, YM Ganat, K Devkota, R Batorsky, M Lei, K Lee, LJ Cowen, ... Cellular and Molecular Life Sciences 79 (2), 78, 2022 | 14 | 2022 |
| Diffusion state distances: multitemporal analysis, fast algorithms, and applications to biological networks L Cowen, K Devkota, X Hu, JM Murphy, K Wu SIAM Journal on Mathematics of Data Science 3 (1), 142-170, 2021 | 7 | 2021 |
| Current and future directions in network biology M Zitnik, MM Li, A Wells, K Glass, DM Gysi, A Krishnan, TM Murali, ... arXiv preprint arXiv:2309.08478, 2023 | 6 | 2023 |
| GLIDER: function prediction from GLIDE-based neighborhoods K Devkota, H Schmidt, M Werenski, JM Murphy, M Erden, V Arsenescu, ... Bioinformatics 38 (13), 3395-3406, 2022 | 4 | 2022 |
| TT3D: Leveraging precomputed protein 3D sequence models to predict protein–protein interactions S Sledzieski, K Devkota, R Singh, L Cowen, B Berger Bioinformatics 39 (11), btad663, 2023 | 3 | 2023 |
| Diffusion state distances: Multitemporal analysis, fast algorithms, and applications to biological networks L Cowen, K Devkota, X Hu, JM Murphy, K Wu arXiv preprint arXiv:2003.03616, 2020 | 3 | 2020 |
| MUNDO: protein function prediction embedded in a multispecies world V Arsenescu, K Devkota, M Erden, P Shpilker, M Werenski, LJ Cowen Bioinformatics Advances 2 (1), vbab025, 2022 | 2 | 2022 |
| Fast approximate isorank for scalable global alignment of biological networks K Devkota, A Blumer, L Cowen, X Hu bioRxiv, 2023.03. 13.532445, 2023 | 1 | 2023 |
| Computational Methods for the Prediction and Analysis of Protein-Protein Interaction Networks K Devkota Tufts University, 2023 | | 2023 |
| Neighborhood embedding and re-ranking of disease genes with ADAGIO M Erden, M Gelement, S Hakimjee, K Levin, MJ Sidhom, K Devkota, ... Proceedings of the 13th ACM International Conference on Bioinformatics …, 2022 | | 2022 |
